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Protein

Exonuclease mut-7 homolog

Gene

EXD3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Possesses 3'-5' exoribonuclease activity. Required for 3'-end trimming of AGO1-bound miRNAs (By similarity).By similarity

Cofactori

Mg2+By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Exonuclease, Hydrolase, Nuclease

Keywords - Ligandi

Magnesium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Exonuclease mut-7 homolog (EC:3.1.-.-)
Alternative name(s):
Exonuclease 3'-5' domain-containing protein 3
Gene namesi
Name:EXD3
ORF Names:HBE269
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 9

Organism-specific databases

HGNCiHGNC:26023. EXD3.

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA164719422.

Polymorphism and mutation databases

BioMutaiEXD3.
DMDMi308153580.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 876876Exonuclease mut-7 homologPRO_0000319059Add
BLAST

Proteomic databases

PaxDbiQ8N9H8.
PeptideAtlasiQ2TAK4.
PRIDEiQ8N9H8.

PTM databases

iPTMnetiQ8N9H8.

Expressioni

Gene expression databases

BgeeiQ8N9H8.
ExpressionAtlasiQ8N9H8. baseline and differential.
GenevisibleiQ8N9H8. HS.

Organism-specific databases

HPAiHPA047395.

Interactioni

Protein-protein interaction databases

BioGridi120272. 4 interactions.
MINTiMINT-5005423.
STRINGi9606.ENSP00000340474.

Structurei

3D structure databases

ProteinModelPortaliQ8N9H8.
SMRiQ8N9H8. Positions 395-566.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini517 – 571553'-5' exonucleaseAdd
BLAST

Sequence similaritiesi

Belongs to the mut-7 family.Curated
Contains 1 3'-5' exonuclease domain.Curated

Phylogenomic databases

eggNOGiKOG2207. Eukaryota.
ENOG410YV3M. LUCA.
GeneTreeiENSGT00390000006843.
HOVERGENiHBG108161.
InParanoidiQ8N9H8.
OMAiCPNVINQ.
OrthoDBiEOG7KSX86.
PhylomeDBiQ8N9H8.
TreeFamiTF328546.

Family and domain databases

Gene3Di3.30.420.10. 2 hits.
InterProiIPR002562. 3'-5'_exonuclease_dom.
IPR002782. Mut7-C_RNAse_dom.
IPR012337. RNaseH-like_dom.
[Graphical view]
PfamiPF01612. DNA_pol_A_exo1. 1 hit.
PF01927. Mut7-C. 1 hit.
[Graphical view]
SMARTiSM00474. 35EXOc. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.

Sequences (5)i

Sequence statusi: Complete.

This entry describes 5 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8N9H8-1) [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
MDPGDPAGDP AAGERHRMGR DPLLLLQALQ TLWSTRERKQ LREEAWRGFA
60 70 80 90 100
ALDDPLAGLL DMLESCRGQR GEGPSLAAWI SHQLQCWLQA QPCPSLAQHS
110 120 130 140 150
LRLKQLQARA VKVLTESPPS LAAPLASIFQ LQDADRSCLL AHVHRLHHEG
160 170 180 190 200
RFREAATLGA TLKLQSELGV EKMSIPLLLQ DKVALVERYV AGFPDLQRRL
210 220 230 240 250
LVLMDSWCQP GFDIKDVARR YPEVTSLSLE KLSPKALSRQ VLRLQERYGV
260 270 280 290 300
APALCPNAAI QQRLAALRHL CHKRFVEKSL SQENWTDHVQ GLVGQSPWLQ
310 320 330 340 350
EQLSQLLVSH SDPVTAAQCA MELLLPEERL PAAVAVELRR FRLQGRATEA
360 370 380 390 400
DSRLEVKDMK DRYYQLPIPR ENVHLLASWE DLTRHEGALL QCHQVVGVDV
410 420 430 440 450
EWTPVFVAGG RPRPSLLQVA VEGHVFLLDV LALSQPPTGQ GAQAFSRLVA
460 470 480 490 500
QLLSDPSITK LGYGMVGDLQ KLGTSCPALA HVEKQILGGM DLLLVHRQMR
510 520 530 540 550
VASVPAPAVD RARELRGLSL LVQQVLGTAL DKTQQLSNWD RRPLCEEQVI
560 570 580 590 600
YAAADAYCLL EVHQALCREP ARFHLSEDLA GSRRPRHRER PGARKPPGLQ
610 620 630 640 650
KASAPAAPRQ VPVAVAVSEG AAPQIPARAF RVVCDNMLQG LARSLRCLGV
660 670 680 690 700
DARMLGNGED HRRAAEVARQ EGRIILTSGQ PFHKLRAQVG AGRCLSVDCS
710 720 730 740 750
LKAQQQAKAV LKHFNVRVTH ADIFSRCQAC NCDQYLKVSR DMMKQLMWLS
760 770 780 790 800
SHQEGPRSSG DEATQSQAVQ EPGPAPDAAP EGCTYDRPCR WLQMADLRAE
810 820 830 840 850
TPDMLADGTR LQLAGVPVGV LRTPGLRCFY CCTGCGKVFW DGSHLGRVAT
860 870
HFRDMLESAP SPCEPSPAPS PASSPF
Length:876
Mass (Da):96,598
Last modified:October 5, 2010 - v3
Checksum:iA9033CFCDE2D1B0D
GO
Isoform 2 (identifier: Q8N9H8-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-277: Missing.
     278-289: KSLSQENWTDHV → MSPSPSSRPPSS

Note: No experimental confirmation available.
Show »
Length:599
Mass (Da):65,379
Checksum:i5C7EFE9C39C20E5F
GO
Isoform 3 (identifier: Q8N9H8-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-320: Missing.
     610-638: Missing.
     760-772: Missing.

Note: No experimental confirmation available.
Show »
Length:514
Mass (Da):56,574
Checksum:i6B3CB08118787AAE
GO
Isoform 4 (identifier: Q8N9H8-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     219-246: RRYPEVTSLSLEKLSPKALSRQVLRLQE → SCHVTAAGAAASGEERLGLAGAQPSSPE
     247-876: Missing.

Show »
Length:246
Mass (Da):26,852
Checksum:i2A1516725BC6A7CE
GO
Isoform 5 (identifier: Q9NX53-1) [UniParc]FASTAAdd to basket

The sequence of this isoform can be found in the external entry Q9NX53.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:252
Mass (Da):26,357
GO

Sequence cautioni

The sequence BAC04356.1 differs from that shown. Reason: Erroneous termination at position 759. Translated as Ser.Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti105 – 1051Q → R in BAC10986 (Ref. 1) Curated
Sequence conflicti105 – 1051Q → R in BAB70838 (PubMed:14702039).Curated
Sequence conflicti105 – 1051Q → R in BAC04356 (PubMed:14702039).Curated
Sequence conflicti160 – 1601A → T in BAC04356 (PubMed:14702039).Curated
Sequence conflicti160 – 1601A → T in AAH37355 (PubMed:15489334).Curated
Sequence conflicti160 – 1601A → T in AAI10880 (PubMed:15489334).Curated
Sequence conflicti249 – 2491G → S in BAC04356 (PubMed:14702039).Curated
Sequence conflicti322 – 3221E → D in BAC10986 (Ref. 1) Curated
Sequence conflicti322 – 3221E → D in BAC04356 (PubMed:14702039).Curated
Sequence conflicti322 – 3221E → D in BAB70838 (PubMed:14702039).Curated
Sequence conflicti519 – 5191S → T in BAC10986 (Ref. 1) Curated
Sequence conflicti545 – 5451C → Y in BAC10986 (Ref. 1) Curated
Sequence conflicti545 – 5451C → Y in BAC04356 (PubMed:14702039).Curated
Sequence conflicti545 – 5451C → Y in BAB70838 (PubMed:14702039).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti20 – 201R → Q.1 Publication
Corresponds to variant rs13291830 [ dbSNP | Ensembl ].
VAR_062225
Natural varianti220 – 2201R → Q.1 Publication
Corresponds to variant rs7389423 [ dbSNP | Ensembl ].
VAR_038945

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 320320Missing in isoform 3. 1 PublicationVSP_031344Add
BLAST
Alternative sequencei1 – 277277Missing in isoform 2. 1 PublicationVSP_031345Add
BLAST
Alternative sequencei219 – 24628RRYPE…LRLQE → SCHVTAAGAAASGEERLGLA GAQPSSPE in isoform 4. 1 PublicationVSP_031346Add
BLAST
Alternative sequencei247 – 876630Missing in isoform 4. 1 PublicationVSP_031347Add
BLAST
Alternative sequencei278 – 28912KSLSQ…WTDHV → MSPSPSSRPPSS in isoform 2. 1 PublicationVSP_031348Add
BLAST
Alternative sequencei610 – 63829Missing in isoform 3. 1 PublicationVSP_031349Add
BLAST
Alternative sequencei760 – 77213Missing in isoform 3. 1 PublicationVSP_031350Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB061798 mRNA. Translation: BAC10986.1.
AK055004 mRNA. Translation: BAB70838.1.
AK094438 mRNA. Translation: BAC04356.1. Sequence problems.
BX322799 Genomic DNA. Translation: CAX12959.1.
BC037355 mRNA. Translation: AAH37355.1.
BC110879 mRNA. Translation: AAI10880.1.
CCDSiCCDS48066.1. [Q8N9H8-1]
CCDS75942.1. [Q8N9H8-4]
RefSeqiNP_001273752.1. NM_001286823.1. [Q8N9H8-4]
NP_060290.3. NM_017820.4. [Q8N9H8-1]
UniGeneiHs.495553.
Hs.721419.

Genome annotation databases

EnsembliENST00000340951; ENSP00000340474; ENSG00000187609. [Q8N9H8-1]
ENST00000479452; ENSP00000431859; ENSG00000187609. [Q8N9H8-4]
GeneIDi54932.
KEGGihsa:54932.
UCSCiuc004cmp.4. human. [Q8N9H8-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB061798 mRNA. Translation: BAC10986.1.
AK055004 mRNA. Translation: BAB70838.1.
AK094438 mRNA. Translation: BAC04356.1. Sequence problems.
BX322799 Genomic DNA. Translation: CAX12959.1.
BC037355 mRNA. Translation: AAH37355.1.
BC110879 mRNA. Translation: AAI10880.1.
CCDSiCCDS48066.1. [Q8N9H8-1]
CCDS75942.1. [Q8N9H8-4]
RefSeqiNP_001273752.1. NM_001286823.1. [Q8N9H8-4]
NP_060290.3. NM_017820.4. [Q8N9H8-1]
UniGeneiHs.495553.
Hs.721419.

3D structure databases

ProteinModelPortaliQ8N9H8.
SMRiQ8N9H8. Positions 395-566.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi120272. 4 interactions.
MINTiMINT-5005423.
STRINGi9606.ENSP00000340474.

PTM databases

iPTMnetiQ8N9H8.

Polymorphism and mutation databases

BioMutaiEXD3.
DMDMi308153580.

Proteomic databases

PaxDbiQ8N9H8.
PeptideAtlasiQ2TAK4.
PRIDEiQ8N9H8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000340951; ENSP00000340474; ENSG00000187609. [Q8N9H8-1]
ENST00000479452; ENSP00000431859; ENSG00000187609. [Q8N9H8-4]
GeneIDi54932.
KEGGihsa:54932.
UCSCiuc004cmp.4. human. [Q8N9H8-1]

Organism-specific databases

CTDi54932.
GeneCardsiEXD3.
HGNCiHGNC:26023. EXD3.
HPAiHPA047395.
neXtProtiNX_Q8N9H8.
PharmGKBiPA164719422.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2207. Eukaryota.
ENOG410YV3M. LUCA.
GeneTreeiENSGT00390000006843.
HOVERGENiHBG108161.
InParanoidiQ8N9H8.
OMAiCPNVINQ.
OrthoDBiEOG7KSX86.
PhylomeDBiQ8N9H8.
TreeFamiTF328546.

Miscellaneous databases

ChiTaRSiEXD3. human.
GenomeRNAii54932.

Gene expression databases

BgeeiQ8N9H8.
ExpressionAtlasiQ8N9H8. baseline and differential.
GenevisibleiQ8N9H8. HS.

Family and domain databases

Gene3Di3.30.420.10. 2 hits.
InterProiIPR002562. 3'-5'_exonuclease_dom.
IPR002782. Mut7-C_RNAse_dom.
IPR012337. RNaseH-like_dom.
[Graphical view]
PfamiPF01612. DNA_pol_A_exo1. 1 hit.
PF01927. Mut7-C. 1 hit.
[Graphical view]
SMARTiSM00474. 35EXOc. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A novel gene from human brain endothelial cell."
    Hasegawa H., Yonezawa T., Ninomiya Y.
    Submitted (MAY-2001) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3).
  2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2), VARIANT GLN-220.
    Tissue: Cerebellum.
  3. "DNA sequence and analysis of human chromosome 9."
    Humphray S.J., Oliver K., Hunt A.R., Plumb R.W., Loveland J.E., Howe K.L., Andrews T.D., Searle S., Hunt S.E., Scott C.E., Jones M.C., Ainscough R., Almeida J.P., Ambrose K.D., Ashwell R.I.S., Babbage A.K., Babbage S., Bagguley C.L.
    , Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beasley H., Beasley O., Bird C.P., Bray-Allen S., Brown A.J., Brown J.Y., Burford D., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Chen Y., Clarke G., Clark S.Y., Clee C.M., Clegg S., Collier R.E., Corby N., Crosier M., Cummings A.T., Davies J., Dhami P., Dunn M., Dutta I., Dyer L.W., Earthrowl M.E., Faulkner L., Fleming C.J., Frankish A., Frankland J.A., French L., Fricker D.G., Garner P., Garnett J., Ghori J., Gilbert J.G.R., Glison C., Grafham D.V., Gribble S., Griffiths C., Griffiths-Jones S., Grocock R., Guy J., Hall R.E., Hammond S., Harley J.L., Harrison E.S.I., Hart E.A., Heath P.D., Henderson C.D., Hopkins B.L., Howard P.J., Howden P.J., Huckle E., Johnson C., Johnson D., Joy A.A., Kay M., Keenan S., Kershaw J.K., Kimberley A.M., King A., Knights A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C., Lloyd D.M., Lovell J., Martin S., Mashreghi-Mohammadi M., Matthews L., McLaren S., McLay K.E., McMurray A., Milne S., Nickerson T., Nisbett J., Nordsiek G., Pearce A.V., Peck A.I., Porter K.M., Pandian R., Pelan S., Phillimore B., Povey S., Ramsey Y., Rand V., Scharfe M., Sehra H.K., Shownkeen R., Sims S.K., Skuce C.D., Smith M., Steward C.A., Swarbreck D., Sycamore N., Tester J., Thorpe A., Tracey A., Tromans A., Thomas D.W., Wall M., Wallis J.M., West A.P., Whitehead S.L., Willey D.L., Williams S.A., Wilming L., Wray P.W., Young L., Ashurst J.L., Coulson A., Blocker H., Durbin R.M., Sulston J.E., Hubbard T., Jackson M.J., Bentley D.R., Beck S., Rogers J., Dunham I.
    Nature 429:369-374(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 4), VARIANT GLN-20.
    Tissue: Lung and Skin.

Entry informationi

Entry nameiMUT7_HUMAN
AccessioniPrimary (citable) accession number: Q8N9H8
Secondary accession number(s): B8A4U7
, C9JIQ9, Q2TAK4, Q8N3X4, Q8NHD1, Q96NP1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 26, 2008
Last sequence update: October 5, 2010
Last modified: June 8, 2016
This is version 109 of the entry and version 3 of the sequence. [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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 9
    Human chromosome 9: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.