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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

CHID1 Gene

protein-coding   GIFtS: 46
GCID: GC11M000859

chitinase domain containing 1

  Search for CHID1
in our new
 Human Malady Compendium 
Biological research products
for CHID1
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Chitinase Domain Containing 11 2     MGC32341
Stabilin-1-Interacting Chitinase-Like Protein2 3     Chitinase Domain-Containing Protein 12
SI-CLP2 3     Stabilin-1 Interacting Chitinase-Like Protein2
FLJ427071     

External Ids:    HGNC: 284741   Entrez Gene: 660052   Ensembl: ENSG000001778307   UniProtKB: Q9BWS93   

Export aliases for CHID1 gene to outside databases

Previous GC identifer: GC11M000683


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: CHID1_HUMAN, Q9BWS9
Function: Saccharide- and LPS-binding protein with possible roles in pathogen sensing and endotoxin neutralization.
Ligand-binding specificity relates to the length of the oligosaccharides, with preference for chitotetraose (in vitro)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000011.9  NC_018922.1  NT_009237.18  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CHID1 gene promoter:
         MAZR   p53   Arnt   Meis-1b   Gfi-1   Meis-1a   Meis-1   ATF6   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCHID1 promoter sequence
   Search SABiosciences Chromatin IP Primers for CHID1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CHID1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 11p15.5   Ensembl cytogenetic band:  11p15.5   HGNC cytogenetic band: 11p15.5

CHID1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CHID1 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11M000859:  view genomic region     (about GC identifiers)

Start:
867,357 bp from pter      End:
915,058 bp from pter
Size:
47,702 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: CHID1_HUMAN, Q9BWS9 (See protein sequence)
Recommended Name: Chitinase domain-containing protein 1 precursor  
Size: 393 amino acids; 44941 Da
Subunit: Interacts with STAB1
Subcellular location: Secreted. Lysosome
1 PDB 3D structure from and Proteopedia for CHID1:
3BXW (3D)    
Secondary accessions: B3KWB0 Q8NBM9 Q96CZ3 Q96S93 Q96SK0 Q9BY52
Alternative splicing: 3 isoforms:  Q9BWS9-1   Q9BWS9-2   Q9BWS9-3   

Explore the universe of human proteins at neXtProt for CHID1: NX_Q9BWS9

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9BWS9

  • CHID1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (5 alternative transcripts): 
    NP_001136146.1  NP_001136147.1  NP_001136148.1  NP_001136149.1  NP_076436.3  

    ENSEMBL proteins: 
     ENSP00000433879   ENSP00000431169   ENSP00000325055   ENSP00000431356   ENSP00000416034  
     ENSP00000435503   ENSP00000388156   ENSP00000435336   ENSP00000434651   ENSP00000432697  
     ENSP00000432431   ENSP00000436017   ENSP00000435731   ENSP00000436752   ENSP00000433570  
     ENSP00000435607   ENSP00000431766   ENSP00000324821   ENSP00000391255   ENSP00000398722  
     ENSP00000338838  

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    Uscn Proteins for CHID1

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region IEA--
    GO:0005764lysosome IEA--


    CHID1 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    CHID1 for domains           About GeneDecksing

    4 InterPro domains/families:
     IPR011583 Chitinase_II
     IPR017853 Glycoside_hydrolase_SF
     IPR001223 Glyco_hydro18cat
     IPR013781 Glyco_hydro_catalytic_dom

    Graphical View of Domain Structure for InterPro Entry Q9BWS9

    ProtoNet protein and cluster: Q9BWS9

    UniProtKB/Swiss-Prot: CHID1_HUMAN, Q9BWS9
    Similarity: Belongs to the glycosyl hydrolase 18 family


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: CHID1_HUMAN, Q9BWS9
    Function: Saccharide- and LPS-binding protein with possible roles in pathogen sensing and endotoxin neutralization.
    Ligand-binding specificity relates to the length of the oligosaccharides, with preference for chitotetraose (in vitro)
    Induction: Up-regulated by IL4/interleukin-4 and dexamethasone in the macrophages. Up-regulated by glucocorticoid

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CHID1

    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003824catalytic activity ----
    GO:0004568chitinase activity IEA--
    GO:0043169cation binding IEA--


    CHID1 for ontologies           About GeneDecksing


    2 GenomeRNAi human phenotypes for CHID1:
     Decreased circadian period len  Decreased viability with cispl 


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CHID1

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    2 Interacting proteins for CHID1 (Q9BWS93 ENSP000003388384) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    STAB1Q9NY153, ENSP000003129464I2D: score=1 STRING: ENSP00000312946
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005975carbohydrate metabolic process IEA--
    GO:0006032chitin catabolic process IEA--
    GO:0045087innate immune response IEA--


    CHID1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for CHID1
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    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for CHID1 gene (5 alternative transcripts): 
    NM_001142674.1  NM_001142675.1  NM_001142676.1  NM_001142677.1  NM_023947.3  

    Unigene Cluster for CHID1:

    Chitinase domain containing 1
    Hs.144468  [show with all ESTs]
    Unigene Representative Sequence: NM_001142675
    18/26 Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 26):
    ENST00000532909 ENST00000529539 ENST00000323578 ENST00000534207 ENST00000429789
    ENST00000528581 ENST00000436108 ENST00000524538 ENST00000528521 ENST00000526714
    ENST00000528534 ENST00000524832 ENST00000531010 ENST00000531859 ENST00000534254
    ENST00000528426 ENST00000533056 ENST00000533059

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    Additional cDNA sequence: 

    AF212229.1 AK027711.1 AK075413.1 AK124697.1 AK225025.1 AK225398.1 AK297743.1 AK301245.1 
    AY037151.1 BC000001.2 BC013642.1 BC095409.1 

    22 DOTS entries:

    DT.100038265  DT.116819  DT.97818425  DT.100826012  DT.100800785  DT.95263817  DT.100826007  DT.92446358 
    DT.100826000  DT.100826015  DT.100826004  DT.100840054  DT.101963528  DT.120699221  DT.95259504  DT.120699223 
    DT.100826001  DT.100826003  DT.120699214  DT.120699254  DT.95259496  DT.95259513 

    24/355 AceView cDNA sequences (see all 355):

    AI474457 BG674293 AA563856 BM720274 BQ000149 BX397399 AI815918 BC000001 
    BU501790 BM807794 AV655765 AV647073 CA396681 BU680477 CF130423 BQ934003 
    AW827234 AI184854 BQ006128 BM726287 BM821290 BI755102 BM972980 BP366462 

    GeneLoc Exon Structure

    5/9 Alternative Splicing Database (ASD) splice patterns (SP) for CHID1 (see all 9)    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12a · 12b · 12c ^ 13 ^ 14a · 14b ^ 15 ^ 16a · 16b · 16c
    SP1:              -                                   -                                                     -     -     -                                 
    SP2:                          -                       -                                                     -     -     -                                 
    SP3:              -           -                       -                                                     -     -     -                                 
    SP4:                                                                                                                                                      
    SP5:              -           -                                                                                                                           


    ECgene alternative splicing isoforms for CHID1

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    CHID1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GAGTGAGTGA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See CHID1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CHID1

    SOURCE GeneReport for Unigene cluster: Hs.144468

    UniProtKB/Swiss-Prot: CHID1_HUMAN, Q9BWS9
    Tissue specificity: Expressed in cells of monocytic, T, B and epithelial origin

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    In Situ
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for CHID1 gene from 9/26 species (see all 26)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Chid11 , 5 chitinase domain containing 11, 5 86.77(n)1
    89.82(a)1
      7 (86.86 cM)5
    680381  NM_001142681.11  NP_001136153.11 
     1414931365 
    chicken
    (Gallus gallus)
    Aves CHID11 chitinase domain containing 1 66.33(n)
    66.92(a)
      423103  NM_001199634.1  NP_001186563.1 
    lizard
    (Anolis carolinensis)
    Reptilia CHID16
    --
    63(a)
    1 ↔ 1
    1(72571826-72589357)
    African clawed frog
    (Xenopus laevis)
    Amphibia BJ079988.12   -- 81.64(n)    BJ079988.1 
    zebrafish
    (Danio rerio)
    Actinopterygii wufb02e072 wufb02e07 74.09(n)   337225  BC054696.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG84601 CG8460 51.44(n)
    42.26(a)
      34115  NM_135346.3  NP_609190.2 
    worm
    (Caenorhabditis elegans)
    Secernentea C44C1.26
    R09B5.126
    Protein R09B5.12
    27(a)
    20(a)
    many → 1
    many → 1
    X(957883-960564)
    V(1455062-1456646)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT4G010401 glycosyl hydrolase family 18 protein 50.05(n)
    40.52(a)
      827924  NM_116334.3  NP_192013.1 
    rice
    (Oryza sativa)
    Liliopsida Os01g06198001 hypothetical protein 49.61(n)
    42.72(a)
      4326620  NM_001050131.1  NP_001043596.1 


    ENSEMBL Gene Tree for CHID1 (if available)
    TreeFam Gene Tree for CHID1 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/894 NCBI SNPs in CHID1 are shown (see all 894    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1116209781,2
    C,F,--696461(+) CTCACG/ACGTGT 1 -- nc-transcript-variant1Minor allele frequency- A:0.02NA 120
    rs97368521,2
    A--696773(+) GTAGGC/TTGGGT 1 -- nc-transcript-variant0--------
    rs11278131,2
    --697700(-) gaggcC/Gaaatt 1 -- us2k10--------
    rs1180893631,2
    C,F,--698629(+) GAGGGG/ATGCAT 1 -- us2k11Minor allele frequency- A:0.07NA 120
    rs1112933711,2
    --698639(+) TCCTCC/TCCATG 1 -- us2k12Minor allele frequency- T:0.13CSA WA 119
    rs1131281541,2
    --698859(+) CACACC/ACAGGG 1 -- us2k12Minor allele frequency- A:0.12CSA WA 120
    rs1128971091,2
    C--699310(+) ACACTG/CACTGA 1 -- us2k11Minor allele frequency- C:0.00CSA 1
    rs1135391151,2
    C--699311(+) CACTCA/G/TCTGAT 1 -- us2k11CSA 1
    rs283763571,2
    C--867621(+) AAAAAC/AAAAGT 5 -- int12Minor allele frequency- A:0.00NA WA 4
    rs1510066221,2
    --867676(+) CTGCCA/TGCCTT 5 -- int10--------

    HapMap Linkage Disequilibrium report for CHID1 (867357 - 915058 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 6 variations for CHID1
         6 CNVs: 29886 3831 29883 29885 6948 4726

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    CHID1 for disorders           About MalaCards

    CHID1 for disorders           About GeneDecksing

    Human Genome Epidemiology (HuGE) Navigator: CHID1 (1 document)

    Export disorders for CHID1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for CHID1 gene, integrated from 9 sources (see all 15):
    (articles sorted by number of sources associating them with CHID1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Structure of human stabilin-1 interacting chitinase-l ike protein (SI-CLP) reveals a saccharide-binding cleft with lower sugar-bindin g selectivity. (PubMed id 20724479)1, 2 Meng G....Zheng X. (2010)
    2. Novel stabilin-1 interacting chitinase-like protein (SI-CLP) is up- regulated in alternatively activated macrophages and secreted via lysosomal pathway. (PubMed id 16357325)1, 2 Kzhyshkowska J.... Goerdt S. (2006)
    3. Signal sequence and keyword trap in silico for selection of full- length human cDNAs encoding secretion or membrane proteins from oligo- capped cDNA libraries. (PubMed id 16303743)1, 2 Otsuki T....Isogai T. (2005)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    6. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    7. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    8. Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
    9. Global identification of modular cullin-RING ligase su bstrates. (PubMed id 21963094)1 Emanuele M.J....Elledge S.J. (2011)
    10. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 66005 HGNC: 28474 AceView: MGC3234 Ensembl:ENSG00000177830 euGenes: HUgn66005
    ECgene: CHID1 H-InvDB: CHID1

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for CHID1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for CHID1 gene:
    Search GeneIP for patents involving CHID1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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