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Q2NYD9

- CLP_XANOM

UniProt

Q2NYD9 - CLP_XANOM

Protein

CRP-like protein Clp

Gene

clp

Organism
Xanthomonas oryzae pv. oryzae (strain MAFF 311018)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 64 (01 Oct 2014)
      Sequence version 1 (07 Feb 2006)
      Previous versions | rss
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    Functioni

    Global transcriptional regulator that regulates virulence factors production by activating or repressing the expression of a large set of genes in diffusible signal factor (DSF) pathway.By similarity

    Enzyme regulationi

    Allosterically inhibited by cyclic di-GMP (c-di-GMP), which binds to Clp and abolishes its ability to bind its target gene promoter.By similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi18 – 139122cNMPAdd
    BLAST
    DNA bindingi190 – 20920H-T-H motifPROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. catalytic activity Source: UniProtKB-KW
    2. cyclic-di-GMP binding Source: UniProtKB
    3. DNA binding Source: UniProtKB
    4. protein dimerization activity Source: UniProtKB
    5. sequence-specific DNA binding transcription factor activity Source: UniProtKB

    GO - Biological processi

    1. pathogenesis Source: UniProtKB-KW
    2. regulation of transcription, DNA-templated Source: UniProtKB
    3. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Activator, Repressor

    Keywords - Biological processi

    Transcription, Transcription regulation, Virulence

    Keywords - Ligandi

    c-di-GMP, DNA-binding

    Enzyme and pathway databases

    BioCyciXORY342109:GIX9-3992-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    CRP-like protein Clp
    Alternative name(s):
    Catabolite activation-like protein
    Short name:
    CAP-like
    Gene namesi
    Name:clp
    Ordered Locus Names:XOO3933
    OrganismiXanthomonas oryzae pv. oryzae (strain MAFF 311018)
    Taxonomic identifieri342109 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXanthomonas
    ProteomesiUP000001957: Chromosome

    Subcellular locationi

    Cytoplasm Curated

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 230230CRP-like protein ClpPRO_0000405706Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.By similarity

    Protein-protein interaction databases

    STRINGi342109.XOO_3933.

    Structurei

    3D structure databases

    ProteinModelPortaliQ2NYD9.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini158 – 23073HTH crp-typePROSITE-ProRule annotationAdd
    BLAST

    Domaini

    Binding of c-di-GMP appears to trigger the active Clp conformation into an open form or inactive state, hence abolishing its DNA-binding ability.By similarity

    Sequence similaritiesi

    Contains 1 cyclic nucleotide-binding domain.PROSITE-ProRule annotation
    Contains 1 HTH crp-type DNA-binding domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG0664.
    HOGENOMiHOG000217740.
    KOiK10914.
    OMAiIMAEEDD.
    OrthoDBiEOG69GZGV.

    Family and domain databases

    Gene3Di1.10.10.10. 1 hit.
    2.60.120.10. 1 hit.
    InterProiIPR018490. cNMP-bd-like.
    IPR000595. cNMP-bd_dom.
    IPR012318. HTH_CRP_2.
    IPR014710. RmlC-like_jellyroll.
    IPR001808. Tscrpt_reg_HTH_Crp.
    IPR018335. Tscrpt_reg_HTH_Crp-type_CS.
    IPR011991. WHTH_DNA-bd_dom.
    [Graphical view]
    PfamiPF00027. cNMP_binding. 1 hit.
    PF00325. Crp. 1 hit.
    [Graphical view]
    PRINTSiPR00034. HTHCRP.
    SMARTiSM00100. cNMP. 1 hit.
    SM00419. HTH_CRP. 1 hit.
    [Graphical view]
    SUPFAMiSSF51206. SSF51206. 1 hit.
    PROSITEiPS50042. CNMP_BINDING_3. 1 hit.
    PS00042. HTH_CRP_1. 1 hit.
    PS51063. HTH_CRP_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q2NYD9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSSANTTVVT TTVRNATPSL ALDAGTIERF LAHSHRRRYP TRTDVFRPGD    50
    PAGTLYYVIS GSVSIIAEED DDRELVLGYF GSGEFVGEMG LFIESDTREV 100
    ILRTRTQCEL AEISYERLQQ LFQTSLSPDA PKILYAIGVQ LSKRLLDTTR 150
    KASRLAFLDV TDRIVRTLHD LSKEPEAMSH PQGTQLRVSR QELARLVGCS 200
    REMAGRVLKK LQADGLLHAR GKTVVLYGTR 230
    Length:230
    Mass (Da):25,641
    Last modified:February 7, 2006 - v1
    Checksum:i37AED762A9E640AA
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008229 Genomic DNA. Translation: BAE70688.1.
    RefSeqiYP_452962.1. NC_007705.1.

    Genome annotation databases

    EnsemblBacteriaiBAE70688; BAE70688; BAE70688.
    GeneIDi3858773.
    KEGGixom:XOO_3933.
    PATRICi24118176. VBIXanOry49434_4486.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008229 Genomic DNA. Translation: BAE70688.1 .
    RefSeqi YP_452962.1. NC_007705.1.

    3D structure databases

    ProteinModelPortali Q2NYD9.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 342109.XOO_3933.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAE70688 ; BAE70688 ; BAE70688 .
    GeneIDi 3858773.
    KEGGi xom:XOO_3933.
    PATRICi 24118176. VBIXanOry49434_4486.

    Phylogenomic databases

    eggNOGi COG0664.
    HOGENOMi HOG000217740.
    KOi K10914.
    OMAi IMAEEDD.
    OrthoDBi EOG69GZGV.

    Enzyme and pathway databases

    BioCyci XORY342109:GIX9-3992-MONOMER.

    Family and domain databases

    Gene3Di 1.10.10.10. 1 hit.
    2.60.120.10. 1 hit.
    InterProi IPR018490. cNMP-bd-like.
    IPR000595. cNMP-bd_dom.
    IPR012318. HTH_CRP_2.
    IPR014710. RmlC-like_jellyroll.
    IPR001808. Tscrpt_reg_HTH_Crp.
    IPR018335. Tscrpt_reg_HTH_Crp-type_CS.
    IPR011991. WHTH_DNA-bd_dom.
    [Graphical view ]
    Pfami PF00027. cNMP_binding. 1 hit.
    PF00325. Crp. 1 hit.
    [Graphical view ]
    PRINTSi PR00034. HTHCRP.
    SMARTi SM00100. cNMP. 1 hit.
    SM00419. HTH_CRP. 1 hit.
    [Graphical view ]
    SUPFAMi SSF51206. SSF51206. 1 hit.
    PROSITEi PS50042. CNMP_BINDING_3. 1 hit.
    PS00042. HTH_CRP_1. 1 hit.
    PS51063. HTH_CRP_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Genome sequence of Xanthomonas oryzae pv. oryzae suggests contribution of large numbers of effector genes and insertion sequences to its race diversity."
      Ochiai H., Inoue Y., Takeya M., Sasaki A., Kaku H.
      Jpn. Agric. Res. Q. 39:275-287(2005)
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: MAFF 311018.

    Entry informationi

    Entry nameiCLP_XANOM
    AccessioniPrimary (citable) accession number: Q2NYD9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 8, 2011
    Last sequence update: February 7, 2006
    Last modified: October 1, 2014
    This is version 64 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Allosteric enzyme, Complete proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3