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Protein

Alpha-hydroxynitrile lyase

Gene

HNL

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in cyanogenesis, the release of HCN from injured tissues (By similarity). Displays R-selective hydroxynitrile lyase activity. Also accepts nitromethane (MeNO2) as a donor in a reaction with aromatic aldehydes to yield (R)-beta-nitro alcohols.By similarity4 Publications

Catalytic activityi

(R)-mandelonitrile = cyanide + benzaldehyde.1 Publication

Kineticsi

  1. KM=1.4 mM for mandelonitrile1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Active sitei811
    Active sitei2081
    Active sitei2361

    GO - Molecular functioni

    • hydrolase activity Source: GO_Central
    • mandelonitrile lyase activity Source: TAIR

    GO - Biological processi

    • glycoside catabolic process Source: TAIR
    • response to wounding Source: TAIR
    Complete GO annotation...

    Keywords - Molecular functioni

    Lyase

    Enzyme and pathway databases

    BioCyciARA:AT5G10300-MONOMER.
    BRENDAi4.1.2.10. 399.

    Protein family/group databases

    ESTHERiarath-HNL. Hydroxynitrile_lyase.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Alpha-hydroxynitrile lyase (EC:4.1.2.10)
    Short name:
    AtHNL
    Alternative name(s):
    (R)-hydroxynitrile lyase
    (R)-oxynitrilase
    Methylesterase 5
    Short name:
    AtMES5
    Gene namesi
    Name:HNL
    Synonyms:MES5
    Ordered Locus Names:At5g10300
    ORF Names:F18D22_70
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    Proteomesi
    • UP000006548 Componenti: Chromosome 5

    Organism-specific databases

    TAIRiAT5G10300.

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi81S → A: Loss of activity. 1 Publication1
    Mutagenesisi208D → N: Loss of activity. 1 Publication1
    Mutagenesisi236H → F: Loss of activity. 1 Publication1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00004181741 – 258Alpha-hydroxynitrile lyaseAdd BLAST258

    Proteomic databases

    PaxDbiQ9LFT6.

    Expressioni

    Gene expression databases

    GenevisibleiQ9LFT6. AT.

    Interactioni

    Subunit structurei

    Homodimer.By similarity

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    MES9O231713EBI-4453194,EBI-4446268

    Protein-protein interaction databases

    BioGridi16172. 1 interactor.
    IntActiQ9LFT6. 1 interactor.
    STRINGi3702.AT5G10300.1.

    Structurei

    Secondary structure

    1258
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi6 – 10Combined sources5
    Helixi17 – 20Combined sources4
    Helixi23 – 29Combined sources7
    Beta strandi33 – 37Combined sources5
    Helixi49 – 51Combined sources3
    Helixi55 – 67Combined sources13
    Beta strandi75 – 80Combined sources6
    Helixi83 – 91Combined sources9
    Helixi95 – 97Combined sources3
    Beta strandi98 – 105Combined sources8
    Beta strandi111 – 113Combined sources3
    Helixi117 – 123Combined sources7
    Beta strandi133 – 139Combined sources7
    Beta strandi142 – 148Combined sources7
    Helixi151 – 157Combined sources7
    Helixi164 – 173Combined sources10
    Helixi181 – 185Combined sources5
    Turni192 – 194Combined sources3
    Helixi195 – 197Combined sources3
    Beta strandi200 – 205Combined sources6
    Beta strandi209 – 211Combined sources3
    Helixi213 – 222Combined sources10
    Beta strandi228 – 231Combined sources4
    Helixi238 – 241Combined sources4
    Helixi243 – 256Combined sources14

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    3DQZX-ray2.50A/B/C/D1-258[»]
    ProteinModelPortaliQ9LFT6.
    SMRiQ9LFT6.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ9LFT6.

    Family & Domainsi

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiENOG410IIY7. Eukaryota.
    ENOG4111IVV. LUCA.
    HOGENOMiHOG000133452.
    InParanoidiQ9LFT6.
    KOiK20802.
    OMAiEFSSHET.
    OrthoDBiEOG09360IA1.
    PhylomeDBiQ9LFT6.

    Family and domain databases

    Gene3Di3.40.50.1820. 1 hit.
    InterProiIPR029058. AB_hydrolase.
    IPR000073. AB_hydrolase_1.
    [Graphical view]
    PfamiPF12697. Abhydrolase_6. 1 hit.
    [Graphical view]
    SUPFAMiSSF53474. SSF53474. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q9LFT6-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MERKHHFVLV HNAYHGAWIW YKLKPLLESA GHRVTAVELA ASGIDPRPIQ
    60 70 80 90 100
    AVETVDEYSK PLIETLKSLP ENEEVILVGF SFGGINIALA ADIFPAKIKV
    110 120 130 140 150
    LVFLNAFLPD TTHVPSHVLD KYMEMPGGLG DCEFSSHETR NGTMSLLKMG
    160 170 180 190 200
    PKFMKARLYQ NCPIEDYELA KMLHRQGSFF TEDLSKKEKF SEEGYGSVQR
    210 220 230 240 250
    VYVMSSEDKA IPCDFIRWMI DNFNVSKVYE IDGGDHMVML SKPQKLFDSL

    SAIATDYM
    Length:258
    Mass (Da):29,217
    Last modified:October 1, 2000 - v1
    Checksum:i0CFA965320F1FD2E
    GO

    Experimental Info

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sequence conflicti70P → Q in AAL25532 (PubMed:14593172).Curated1
    Sequence conflicti75V → G in AAL25532 (PubMed:14593172).Curated1
    Sequence conflicti177G → R in AAK76689 (PubMed:14593172).Curated1

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AL360334 Genomic DNA. Translation: CAB96686.1.
    CP002688 Genomic DNA. Translation: AED91518.1.
    AY046015 mRNA. Translation: AAK76689.1.
    AY058115 mRNA. Translation: AAL25532.1.
    AY093714 mRNA. Translation: AAM10338.1.
    AY142490 mRNA. Translation: AAN13041.1.
    AK226255 mRNA. Translation: BAE98416.1.
    PIRiT50818.
    RefSeqiNP_196592.1. NM_121068.4.
    UniGeneiAt.19934.

    Genome annotation databases

    EnsemblPlantsiAT5G10300.1; AT5G10300.1; AT5G10300.
    GeneIDi830894.
    GrameneiAT5G10300.1; AT5G10300.1; AT5G10300.
    KEGGiath:AT5G10300.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AL360334 Genomic DNA. Translation: CAB96686.1.
    CP002688 Genomic DNA. Translation: AED91518.1.
    AY046015 mRNA. Translation: AAK76689.1.
    AY058115 mRNA. Translation: AAL25532.1.
    AY093714 mRNA. Translation: AAM10338.1.
    AY142490 mRNA. Translation: AAN13041.1.
    AK226255 mRNA. Translation: BAE98416.1.
    PIRiT50818.
    RefSeqiNP_196592.1. NM_121068.4.
    UniGeneiAt.19934.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    3DQZX-ray2.50A/B/C/D1-258[»]
    ProteinModelPortaliQ9LFT6.
    SMRiQ9LFT6.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi16172. 1 interactor.
    IntActiQ9LFT6. 1 interactor.
    STRINGi3702.AT5G10300.1.

    Protein family/group databases

    ESTHERiarath-HNL. Hydroxynitrile_lyase.

    Proteomic databases

    PaxDbiQ9LFT6.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblPlantsiAT5G10300.1; AT5G10300.1; AT5G10300.
    GeneIDi830894.
    GrameneiAT5G10300.1; AT5G10300.1; AT5G10300.
    KEGGiath:AT5G10300.

    Organism-specific databases

    TAIRiAT5G10300.

    Phylogenomic databases

    eggNOGiENOG410IIY7. Eukaryota.
    ENOG4111IVV. LUCA.
    HOGENOMiHOG000133452.
    InParanoidiQ9LFT6.
    KOiK20802.
    OMAiEFSSHET.
    OrthoDBiEOG09360IA1.
    PhylomeDBiQ9LFT6.

    Enzyme and pathway databases

    BioCyciARA:AT5G10300-MONOMER.
    BRENDAi4.1.2.10. 399.

    Miscellaneous databases

    EvolutionaryTraceiQ9LFT6.
    PROiQ9LFT6.

    Gene expression databases

    GenevisibleiQ9LFT6. AT.

    Family and domain databases

    Gene3Di3.40.50.1820. 1 hit.
    InterProiIPR029058. AB_hydrolase.
    IPR000073. AB_hydrolase_1.
    [Graphical view]
    PfamiPF12697. Abhydrolase_6. 1 hit.
    [Graphical view]
    SUPFAMiSSF53474. SSF53474. 1 hit.
    ProtoNetiSearch...

    Entry informationi

    Entry nameiHNL_ARATH
    AccessioniPrimary (citable) accession number: Q9LFT6
    Secondary accession number(s): Q93Z57, Q94AI5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 11, 2012
    Last sequence update: October 1, 2000
    Last modified: November 30, 2016
    This is version 101 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Caution

    Was originally thought to belong to the methylesterase (MES) family.1 Publication

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. 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.