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Q9Y303

- NAGA_HUMAN

UniProt

Q9Y303 - NAGA_HUMAN

Protein

Putative N-acetylglucosamine-6-phosphate deacetylase

Gene

AMDHD2

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 109 (01 Oct 2014)
      Sequence version 2 (15 Jan 2008)
      Previous versions | rss
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    Functioni

    Hydrolyzes the N-glycolyl group from N-glycolylglucosamine 6-phosphate (GlcNGc-6-P) in the N-glycolylneuraminic acid (Neu5Gc) degradation pathway. Although human is not able to catalyze formation of Neu5Gc due to the inactive CMAHP enzyme, Neu5Gc is present in food and must be degraded.1 Publication

    Catalytic activityi

    N-acetyl-D-glucosamine 6-phosphate + H2O = D-glucosamine 6-phosphate + acetate.1 Publication

    Cofactori

    Binds 1 divalent metal cation per subunit.By similarity

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi143 – 1431Divalent metal cationBy similarity
    Binding sitei154 – 1541Substrate; via amide nitrogenBy similarity
    Metal bindingi211 – 2111Divalent metal cation; via tele nitrogenBy similarity
    Metal bindingi232 – 2321Divalent metal cation; via tele nitrogenBy similarity
    Binding sitei243 – 2431SubstrateBy similarity
    Binding sitei272 – 2721Substrate; via tele nitrogenBy similarity
    Active sitei294 – 2941Proton donor/acceptorBy similarity

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW
    2. N-acetylglucosamine-6-phosphate deacetylase activity Source: UniProtKB

    GO - Biological processi

    1. carbohydrate metabolic process Source: UniProtKB-KW
    2. N-acetylglucosamine metabolic process Source: InterPro
    3. N-acetylneuraminate catabolic process Source: UniProtKB

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Biological processi

    Carbohydrate metabolism

    Keywords - Ligandi

    Metal-binding

    Enzyme and pathway databases

    UniPathwayiUPA00629.

    Protein family/group databases

    MEROPSiM38.979.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Putative N-acetylglucosamine-6-phosphate deacetylase (EC:3.5.1.25)
    Alternative name(s):
    Amidohydrolase domain-containing protein 2
    GlcNAc 6-P deacetylase
    Gene namesi
    Name:AMDHD2
    ORF Names:CGI-14
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 16

    Organism-specific databases

    HGNCiHGNC:24262. AMDHD2.

    Subcellular locationi

    GO - Cellular componenti

    1. nucleus Source: UniProt

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA143485298.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 409409Putative N-acetylglucosamine-6-phosphate deacetylasePRO_0000315776Add
    BLAST

    Proteomic databases

    MaxQBiQ9Y303.
    PaxDbiQ9Y303.
    PRIDEiQ9Y303.

    PTM databases

    PhosphoSiteiQ9Y303.

    Expressioni

    Gene expression databases

    ArrayExpressiQ9Y303.
    BgeeiQ9Y303.
    CleanExiHS_AMDHD2.
    GenevestigatoriQ9Y303.

    Organism-specific databases

    HPAiHPA041184.
    HPA041321.

    Interactioni

    Protein-protein interaction databases

    BioGridi119213. 1 interaction.
    IntActiQ9Y303. 1 interaction.
    STRINGi9606.ENSP00000307481.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9Y303.
    SMRiQ9Y303. Positions 15-403.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni235 – 2362Substrate bindingBy similarity
    Regioni328 – 3303Substrate bindingBy similarity

    Sequence similaritiesi

    Belongs to the NagA family.Curated

    Phylogenomic databases

    eggNOGiCOG1820.
    HOGENOMiHOG000275010.
    HOVERGENiHBG108170.
    KOiK01443.
    OMAiDLWVREG.
    OrthoDBiEOG7BW0JH.
    PhylomeDBiQ9Y303.
    TreeFamiTF315036.

    Family and domain databases

    Gene3Di2.30.40.10. 2 hits.
    InterProiIPR003764. GlcNAc_6-P_deAcase.
    IPR011059. Metal-dep_hydrolase_composite.
    [Graphical view]
    PIRSFiPIRSF038994. NagA. 1 hit.
    SUPFAMiSSF51338. SSF51338. 2 hits.
    TIGRFAMsiTIGR00221. nagA. 1 hit.

    Sequences (3)i

    Sequence statusi: Complete.

    This entry describes 3 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q9Y303-1) [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

    MRGEQGAAGA RVLQFTNCRI LRGGKLLRED LWVRGGRILD PEKLFFEERR    50
    VADERRDCGG RILAPGFIDV QINGGFGVDF SQATEDVGSG VALVARRILS 100
    HGVTSFCPTL VTSPPEVYHK VVPQIPVKSG GPHGAGVLGL HLEGPFISRE 150
    KRGAHPEAHL RSFEADAFQD LLATYGPLDN VRIVTLAPEL GRSHEVIRAL 200
    TARGICVSLG HSVADLRAAE DAVWSGATFI THLFNAMLPF HHRDPGIVGL 250
    LTSDRLPAGR CIFYGMIADG THTNPAALRI AHRAHPQGLV LVTDAIPALG 300
    LGNGRHTLGQ QEVEVDGLTA YVAGTKTLSG SIAPMDVCVR HFLQATGCSM 350
    ESALEAASLH PAQLLGLEKS KGTLDFGADA DFVVLDDSLH VQATYISGEL 400
    VWQADAARQ 409
    Length:409
    Mass (Da):43,748
    Last modified:January 15, 2008 - v2
    Checksum:iE647E8F384BBC1D6
    GO
    Isoform 2 (identifier: Q9Y303-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         323-323: A → AGERPDPLGPRSQPACQVAHDPPRACPLCSQ

    Show »
    Length:439
    Mass (Da):46,913
    Checksum:i7F91C98F961F9902
    GO
    Isoform 3 (identifier: Q9Y303-3) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         323-323: A → AGERPDPLGPRSQPACQVAHDPPRACPLCSQ
         399-409: ELVWQADAARQ → PVLAGCGDPA...KNHLPGQGLA

    Show »
    Length:594
    Mass (Da):63,595
    Checksum:i41F69F93D6CE37D4
    GO

    Sequence cautioni

    The sequence AAD27723.1 differs from that shown. Reason: Frameshift at positions 5, 7, 11, 103, 113, 117, 192, 194, 195, 202 and 205.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti97 – 971R → E in AAD27723. (PubMed:10810093)Curated
    Sequence conflicti135 – 1351A → Q in AAD27723. (PubMed:10810093)Curated
    Sequence conflicti154 – 1541A → T in AAD27723. (PubMed:10810093)Curated
    Sequence conflicti197 – 1971I → L in AAD27723. (PubMed:10810093)Curated
    Sequence conflicti227 – 2271Missing in AAD27723. (PubMed:10810093)Curated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti294 – 2941D → N in a colorectal cancer sample; somatic mutation. 1 Publication
    VAR_038301

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei323 – 3231A → AGERPDPLGPRSQPACQVAH DPPRACPLCSQ in isoform 2 and isoform 3. 2 PublicationsVSP_030698
    Alternative sequencei399 – 40911ELVWQADAARQ → PVLAGCGDPAWCWRAVWEAP VCPAHPISVILPSSVSPWPW HTPMWQTRAVRLPEQLRGGW ASGALLALRTATVGSDVRDW CSPTSGVIVLTFSPFEFWGG WLPSPLLTGAVLGTGGTRLA LPLFSSLCCKAQLRKCLQVQ RDRMVWAPPVGREQPGKNHL PGQGLA in isoform 3. 1 PublicationVSP_038782Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF132948 mRNA. Translation: AAD27723.1. Frameshift.
    AK296877 mRNA. Translation: BAG59439.1.
    CH471112 Genomic DNA. Translation: EAW85500.1.
    BC018734 mRNA. Translation: AAH18734.1.
    CCDSiCCDS10471.1. [Q9Y303-2]
    CCDS53984.1. [Q9Y303-3]
    RefSeqiNP_001139287.1. NM_001145815.1. [Q9Y303-3]
    NP_057028.2. NM_015944.3. [Q9Y303-2]
    UniGeneiHs.740430.

    Genome annotation databases

    EnsembliENST00000293971; ENSP00000293971; ENSG00000162066. [Q9Y303-1]
    ENST00000302956; ENSP00000307481; ENSG00000162066. [Q9Y303-2]
    ENST00000413459; ENSP00000391596; ENSG00000162066. [Q9Y303-3]
    GeneIDi51005.
    KEGGihsa:51005.
    UCSCiuc002cqp.3. human. [Q9Y303-2]
    uc002cqq.3. human. [Q9Y303-1]
    uc010uwc.2. human. [Q9Y303-3]

    Polymorphism databases

    DMDMi166233266.

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF132948 mRNA. Translation: AAD27723.1 . Frameshift.
    AK296877 mRNA. Translation: BAG59439.1 .
    CH471112 Genomic DNA. Translation: EAW85500.1 .
    BC018734 mRNA. Translation: AAH18734.1 .
    CCDSi CCDS10471.1. [Q9Y303-2 ]
    CCDS53984.1. [Q9Y303-3 ]
    RefSeqi NP_001139287.1. NM_001145815.1. [Q9Y303-3 ]
    NP_057028.2. NM_015944.3. [Q9Y303-2 ]
    UniGenei Hs.740430.

    3D structure databases

    ProteinModelPortali Q9Y303.
    SMRi Q9Y303. Positions 15-403.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 119213. 1 interaction.
    IntActi Q9Y303. 1 interaction.
    STRINGi 9606.ENSP00000307481.

    Protein family/group databases

    MEROPSi M38.979.

    PTM databases

    PhosphoSitei Q9Y303.

    Polymorphism databases

    DMDMi 166233266.

    Proteomic databases

    MaxQBi Q9Y303.
    PaxDbi Q9Y303.
    PRIDEi Q9Y303.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000293971 ; ENSP00000293971 ; ENSG00000162066 . [Q9Y303-1 ]
    ENST00000302956 ; ENSP00000307481 ; ENSG00000162066 . [Q9Y303-2 ]
    ENST00000413459 ; ENSP00000391596 ; ENSG00000162066 . [Q9Y303-3 ]
    GeneIDi 51005.
    KEGGi hsa:51005.
    UCSCi uc002cqp.3. human. [Q9Y303-2 ]
    uc002cqq.3. human. [Q9Y303-1 ]
    uc010uwc.2. human. [Q9Y303-3 ]

    Organism-specific databases

    CTDi 51005.
    GeneCardsi GC16P002570.
    HGNCi HGNC:24262. AMDHD2.
    HPAi HPA041184.
    HPA041321.
    neXtProti NX_Q9Y303.
    PharmGKBi PA143485298.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG1820.
    HOGENOMi HOG000275010.
    HOVERGENi HBG108170.
    KOi K01443.
    OMAi DLWVREG.
    OrthoDBi EOG7BW0JH.
    PhylomeDBi Q9Y303.
    TreeFami TF315036.

    Enzyme and pathway databases

    UniPathwayi UPA00629 .

    Miscellaneous databases

    ChiTaRSi AMDHD2. human.
    GenomeRNAii 51005.
    NextBioi 53474.
    PROi Q9Y303.

    Gene expression databases

    ArrayExpressi Q9Y303.
    Bgeei Q9Y303.
    CleanExi HS_AMDHD2.
    Genevestigatori Q9Y303.

    Family and domain databases

    Gene3Di 2.30.40.10. 2 hits.
    InterProi IPR003764. GlcNAc_6-P_deAcase.
    IPR011059. Metal-dep_hydrolase_composite.
    [Graphical view ]
    PIRSFi PIRSF038994. NagA. 1 hit.
    SUPFAMi SSF51338. SSF51338. 2 hits.
    TIGRFAMsi TIGR00221. nagA. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics."
      Lai C.-H., Chou C.-Y., Ch'ang L.-Y., Liu C.-S., Lin W.-C.
      Genome Res. 10:703-713(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    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] (ISOFORM 3).
      Tissue: Tongue.
    3. 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 2).
      Tissue: Skin.
    5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    6. "Metabolism of vertebrate amino sugars with N-glycolyl groups: elucidating the intracellular fate of the non-human sialic acid N-glycolylneuraminic acid."
      Bergfeld A.K., Pearce O.M., Diaz S.L., Pham T., Varki A.
      J. Biol. Chem. 287:28865-28881(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, CATALYTIC ACTIVITY, PATHWAY.
    7. Cited for: VARIANT [LARGE SCALE ANALYSIS] ASN-294.

    Entry informationi

    Entry nameiNAGA_HUMAN
    AccessioniPrimary (citable) accession number: Q9Y303
    Secondary accession number(s): B4DL77, Q8WV54
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: January 15, 2008
    Last modified: October 1, 2014
    This is version 109 of the entry and version 2 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 16
      Human chromosome 16: 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. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    5. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3