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Q8N4P3

- MESH1_HUMAN

UniProt

Q8N4P3 - MESH1_HUMAN

Protein

Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase MESH1

Gene

HDDC3

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
    • BLAST
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    • History
      Entry version 93 (01 Oct 2014)
      Sequence version 3 (09 Jan 2007)
      Previous versions | rss
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    Functioni

    ppGpp hydrolyzing enzyme involved in starvation response.1 Publication

    Catalytic activityi

    Guanosine 3',5'-bis(diphosphate) + H2O = guanosine 5'-diphosphate + diphosphate.1 Publication

    Cofactori

    Manganese.1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi35 – 351Manganese
    Metal bindingi61 – 611Manganese
    Metal bindingi62 – 621Manganese
    Active sitei65 – 651Nucleophile1 Publication
    Active sitei66 – 661Nucleophile1 Publication
    Metal bindingi122 – 1221Manganese

    GO - Molecular functioni

    1. guanosine-3',5'-bis(diphosphate) 3'-diphosphatase activity Source: UniProtKB-EC
    2. metal ion binding Source: UniProtKB-KW

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Ligandi

    Manganese, Metal-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase MESH1 (EC:3.1.7.2)
    Alternative name(s):
    HD domain-containing protein 3
    Metazoan SpoT homolog 1
    Short name:
    MESH1
    Penta-phosphate guanosine-3'-pyrophosphohydrolase
    Short name:
    (ppGpp)ase
    Gene namesi
    Name:HDDC3
    Synonyms:MESH1
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 15

    Organism-specific databases

    HGNCiHGNC:30522. HDDC3.

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi24 – 241R → A: Abrogates ppGpp hydrolase activity. 1 Publication
    Mutagenesisi65 – 651E → A: Abrogates ppGpp hydrolase activity. 1 Publication
    Mutagenesisi66 – 661D → A: Reduces ppGpp hydrolase activity. 1 Publication

    Organism-specific databases

    PharmGKBiPA142671696.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 179178Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase MESH1PRO_0000263110Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylglycine1 Publication
    Modified residuei25 – 251N6-acetyllysine1 Publication
    Modified residuei97 – 971N6-acetyllysine1 Publication
    Modified residuei123 – 1231N6-acetyllysine1 Publication

    Keywords - PTMi

    Acetylation

    Proteomic databases

    MaxQBiQ8N4P3.
    PaxDbiQ8N4P3.
    PRIDEiQ8N4P3.

    PTM databases

    PhosphoSiteiQ8N4P3.

    Expressioni

    Gene expression databases

    ArrayExpressiQ8N4P3.
    BgeeiQ8N4P3.
    CleanExiHS_HDDC3.
    GenevestigatoriQ8N4P3.

    Organism-specific databases

    HPAiHPA040895.

    Interactioni

    Protein-protein interaction databases

    BioGridi131914. 3 interactions.
    IntActiQ8N4P3. 1 interaction.
    MINTiMINT-1475376.
    STRINGi9606.ENSP00000330721.

    Structurei

    Secondary structure

    1
    179
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi4 – 1815
    Turni19 – 213
    Helixi34 – 4512
    Helixi52 – 609
    Helixi63 – 664
    Helixi71 – 8818
    Helixi97 – 10711
    Helixi108 – 1103
    Helixi113 – 13220
    Helixi140 – 15718
    Helixi162 – 17312
    Turni174 – 1763

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3NR1X-ray1.90A/B2-179[»]
    ProteinModelPortaliQ8N4P3.
    SMRiQ8N4P3. Positions 2-179.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ8N4P3.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini32 – 12796HDAdd
    BLAST

    Sequence similaritiesi

    Belongs to the MESH1 family.Curated
    Contains 1 HD domain.Curated

    Phylogenomic databases

    eggNOGiNOG113345.
    HOVERGENiHBG081594.
    InParanoidiQ8N4P3.
    KOiK01139.
    OMAiNRCTPEG.
    OrthoDBiEOG7X3QTC.
    PhylomeDBiQ8N4P3.
    TreeFamiTF313524.

    Family and domain databases

    InterProiIPR003607. HD/PDEase_dom.
    [Graphical view]
    SMARTiSM00471. HDc. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q8N4P3-1) [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

    MGSEAAQLLE AADFAARKHR QQRRKDPEGT PYINHPIGVA RILTHEAGIT    50
    DIVVLQAALL HDTVEDTDTT LDEVELHFGA QVRRLVEEVT DDKTLPKLER 100
    KRLQVEQAPH SSPGAKLVKL ADKLYNLRDL NRCTPEGWSE HRVQEYFEWA 150
    AQVVKGLQGT NRQLEEALKH LFKQRGLTI 179
    Length:179
    Mass (Da):20,329
    Last modified:January 9, 2007 - v3
    Checksum:iE0946B0FA7BD8109
    GO
    Isoform 2 (identifier: Q8N4P3-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         137-140: GWSE → VKIQ
         141-179: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:140
    Mass (Da):15,733
    Checksum:iF3E269D4D804DEEE
    GO

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei137 – 1404GWSE → VKIQ in isoform 2. 1 PublicationVSP_021866
    Alternative sequencei141 – 17939Missing in isoform 2. 1 PublicationVSP_021867Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC068831 Genomic DNA. No translation available.
    BC033794 mRNA. Translation: AAH33794.1.
    CCDSiCCDS10366.1. [Q8N4P3-2]
    CCDS66866.1. [Q8N4P3-1]
    RefSeqiNP_001273380.1. NM_001286451.1. [Q8N4P3-1]
    NP_940929.1. NM_198527.3. [Q8N4P3-2]
    UniGeneiHs.349979.

    Genome annotation databases

    EnsembliENST00000330334; ENSP00000330721; ENSG00000184508. [Q8N4P3-2]
    ENST00000394272; ENSP00000377814; ENSG00000184508. [Q8N4P3-1]
    GeneIDi374659.
    KEGGihsa:374659.
    UCSCiuc002bqe.4. human. [Q8N4P3-2]

    Polymorphism databases

    DMDMi122065202.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC068831 Genomic DNA. No translation available.
    BC033794 mRNA. Translation: AAH33794.1 .
    CCDSi CCDS10366.1. [Q8N4P3-2 ]
    CCDS66866.1. [Q8N4P3-1 ]
    RefSeqi NP_001273380.1. NM_001286451.1. [Q8N4P3-1 ]
    NP_940929.1. NM_198527.3. [Q8N4P3-2 ]
    UniGenei Hs.349979.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    3NR1 X-ray 1.90 A/B 2-179 [» ]
    ProteinModelPortali Q8N4P3.
    SMRi Q8N4P3. Positions 2-179.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 131914. 3 interactions.
    IntActi Q8N4P3. 1 interaction.
    MINTi MINT-1475376.
    STRINGi 9606.ENSP00000330721.

    PTM databases

    PhosphoSitei Q8N4P3.

    Polymorphism databases

    DMDMi 122065202.

    Proteomic databases

    MaxQBi Q8N4P3.
    PaxDbi Q8N4P3.
    PRIDEi Q8N4P3.

    Protocols and materials databases

    DNASUi 374659.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000330334 ; ENSP00000330721 ; ENSG00000184508 . [Q8N4P3-2 ]
    ENST00000394272 ; ENSP00000377814 ; ENSG00000184508 . [Q8N4P3-1 ]
    GeneIDi 374659.
    KEGGi hsa:374659.
    UCSCi uc002bqe.4. human. [Q8N4P3-2 ]

    Organism-specific databases

    CTDi 374659.
    GeneCardsi GC15M091474.
    H-InvDB HIX0012581.
    HGNCi HGNC:30522. HDDC3.
    HPAi HPA040895.
    neXtProti NX_Q8N4P3.
    PharmGKBi PA142671696.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG113345.
    HOVERGENi HBG081594.
    InParanoidi Q8N4P3.
    KOi K01139.
    OMAi NRCTPEG.
    OrthoDBi EOG7X3QTC.
    PhylomeDBi Q8N4P3.
    TreeFami TF313524.

    Miscellaneous databases

    EvolutionaryTracei Q8N4P3.
    GenomeRNAii 374659.
    NextBioi 100241.
    PROi Q8N4P3.

    Gene expression databases

    ArrayExpressi Q8N4P3.
    Bgeei Q8N4P3.
    CleanExi HS_HDDC3.
    Genevestigatori Q8N4P3.

    Family and domain databases

    InterProi IPR003607. HD/PDEase_dom.
    [Graphical view ]
    SMARTi SM00471. HDc. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Analysis of the DNA sequence and duplication history of human chromosome 15."
      Zody M.C., Garber M., Sharpe T., Young S.K., Rowen L., O'Neill K., Whittaker C.A., Kamal M., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Kodira C.D., Madan A., Qin S., Yang X., Abbasi N., Abouelleil A.
      , Arachchi H.M., Baradarani L., Birditt B., Bloom S., Bloom T., Borowsky M.L., Burke J., Butler J., Cook A., DeArellano K., DeCaprio D., Dorris L. III, Dors M., Eichler E.E., Engels R., Fahey J., Fleetwood P., Friedman C., Gearin G., Hall J.L., Hensley G., Johnson E., Jones C., Kamat A., Kaur A., Locke D.P., Madan A., Munson G., Jaffe D.B., Lui A., Macdonald P., Mauceli E., Naylor J.W., Nesbitt R., Nicol R., O'Leary S.B., Ratcliffe A., Rounsley S., She X., Sneddon K.M.B., Stewart S., Sougnez C., Stone S.M., Topham K., Vincent D., Wang S., Zimmer A.R., Birren B.W., Hood L., Lander E.S., Nusbaum C.
      Nature 440:671-675(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    2. "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 2).
      Tissue: Cervix.
    3. "Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach."
      Gauci S., Helbig A.O., Slijper M., Krijgsveld J., Heck A.J., Mohammed S.
      Anal. Chem. 81:4493-4501(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT GLY-2, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS].
    4. "Lysine acetylation targets protein complexes and co-regulates major cellular functions."
      Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T.C., Olsen J.V., Mann M.
      Science 325:834-840(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-25; LYS-97 AND LYS-123, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    6. Cited for: X-RAY CRYSTALLOGRAPHY (2.9 ANGSTROMS) OF 2-179, FUNCTION, CATALYTIC ACTIVITY, ACTIVE SITE, COFACTOR, MUTAGENESIS OF ARG-24; GLU-65 AND ASP-66, MANGANESE-BINDING SITES.

    Entry informationi

    Entry nameiMESH1_HUMAN
    AccessioniPrimary (citable) accession number: Q8N4P3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 12, 2006
    Last sequence update: January 9, 2007
    Last modified: October 1, 2014
    This is version 93 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

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Human chromosome 15
      Human chromosome 15: entries, gene names and cross-references to MIM
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3