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P11759

- ALGD_PSEAE

UniProt

P11759 - ALGD_PSEAE

Protein

GDP-mannose 6-dehydrogenase

Gene

algD

Organism
Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 137 (01 Oct 2014)
      Sequence version 2 (11 Jan 2001)
      Previous versions | rss
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    Functioni

    Catalyzes the oxidation of guanosine diphospho-D-mannose (GDP-D-mannose) to GDP-D-mannuronic acid, a precursor for alginate polymerization. The alginate layer causes a mucoid phenotype and provides a protective barrier against host immune defenses and antibiotics.

    Catalytic activityi

    GDP-D-mannose + 2 NAD+ + H2O = GDP-D-mannuronate + 2 NADH.

    Enzyme regulationi

    The enzyme can be inhibited by GMP, ATP, GDP-D-glucose and maltose.

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei30 – 301NAD1 Publication
    Binding sitei35 – 351NAD1 Publication
    Binding sitei86 – 861NAD1 Publication
    Binding sitei105 – 1051NAD1 Publication
    Binding sitei124 – 1241NAD; via amide nitrogen1 Publication
    Binding sitei225 – 2251Substrate
    Active sitei268 – 2681Nucleophile
    Binding sitei271 – 2711NAD1 Publication
    Binding sitei324 – 3241Substrate
    Binding sitei331 – 3311NAD1 Publication

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi7 – 126NAD1 Publication

    GO - Molecular functioni

    1. GDP-mannose 6-dehydrogenase activity Source: PseudoCAP
    2. NAD binding Source: PseudoCAP

    GO - Biological processi

    1. alginic acid biosynthetic process Source: PseudoCAP
    2. biofilm formation Source: PseudoCAP

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Alginate biosynthesis

    Keywords - Ligandi

    NAD

    Enzyme and pathway databases

    BioCyciMetaCyc:MONOMER-14396.
    UniPathwayiUPA00286.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    GDP-mannose 6-dehydrogenase (EC:1.1.1.132)
    Short name:
    GMD
    Gene namesi
    Name:algD
    Ordered Locus Names:PA3540
    OrganismiPseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
    Taxonomic identifieri208964 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
    ProteomesiUP000002438: Chromosome

    Organism-specific databases

    PseudoCAPiPA3540.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 436436GDP-mannose 6-dehydrogenasePRO_0000074067Add
    BLAST

    Interactioni

    Subunit structurei

    Homotetramer Potential. According to PubMed:12135385, this enzyme exists as a homotetramer, but results obtained in PubMed:2470755 and PubMed:8294014 indicate that it is a homohexamer.2 PublicationsCurated

    Protein-protein interaction databases

    STRINGi208964.PA3540.

    Structurei

    Secondary structure

    1
    436
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi2 – 65
    Helixi12 – 2110
    Beta strandi25 – 295
    Helixi33 – 408
    Helixi51 – 6010
    Beta strandi64 – 685
    Helixi70 – 756
    Beta strandi78 – 825
    Beta strandi92 – 943
    Helixi97 – 11014
    Beta strandi118 – 1214
    Helixi129 – 1324
    Helixi134 – 1429
    Turni147 – 1493
    Beta strandi150 – 1545
    Helixi164 – 1696
    Beta strandi174 – 1807
    Helixi181 – 19111
    Beta strandi194 – 1963
    Beta strandi198 – 2025
    Helixi203 – 23331
    Helixi238 – 2458
    Turni249 – 2535
    Beta strandi266 – 2683
    Helixi269 – 28214
    Helixi290 – 2923
    Helixi293 – 30816
    Beta strandi315 – 3195
    Beta strandi322 – 3243
    Helixi334 – 34411
    Beta strandi348 – 3525
    Helixi354 – 3596
    Beta strandi362 – 3643
    Helixi366 – 3716
    Helixi374 – 3774
    Helixi384 – 3907
    Beta strandi392 – 3965
    Helixi401 – 4033
    Helixi404 – 4085
    Beta strandi415 – 4217
    Beta strandi424 – 4263
    Beta strandi429 – 4346

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1MFZX-ray2.80A/B/C/D1-436[»]
    1MUUX-ray2.02A/B/C/D1-436[»]
    1MV8X-ray1.55A/B/C/D1-436[»]
    ProteinModelPortaliP11759.
    SMRiP11759. Positions 1-436.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP11759.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni157 – 1615Substrate binding
    Regioni210 – 2178Substrate binding
    Regioni256 – 26510Substrate binding

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG1004.
    HOGENOMiHOG000153773.
    KOiK00066.
    OMAiGDLELDY.
    OrthoDBiEOG6ZSP7N.
    PhylomeDBiP11759.

    Family and domain databases

    Gene3Di3.40.50.720. 2 hits.
    InterProiIPR008927. 6-PGluconate_DH_C-like.
    IPR028358. GDPman_DH.
    IPR016040. NAD(P)-bd_dom.
    IPR017476. UDP-Glc/GDP-Man.
    IPR014027. UDP-Glc/GDP-Man_DH_C.
    IPR014026. UDP-Glc/GDP-Man_DH_dimer.
    IPR001732. UDP-Glc/GDP-Man_DH_N.
    [Graphical view]
    PANTHERiPTHR11374. PTHR11374. 1 hit.
    PfamiPF00984. UDPG_MGDP_dh. 1 hit.
    PF03720. UDPG_MGDP_dh_C. 1 hit.
    PF03721. UDPG_MGDP_dh_N. 1 hit.
    [Graphical view]
    PIRSFiPIRSF500135. GDPman_DH. 1 hit.
    PIRSF000124. UDPglc_GDPman_dh. 1 hit.
    SMARTiSM00984. UDPG_MGDP_dh_C. 1 hit.
    [Graphical view]
    SUPFAMiSSF48179. SSF48179. 1 hit.
    SSF52413. SSF52413. 1 hit.
    TIGRFAMsiTIGR03026. NDP-sugDHase. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    P11759-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRISIFGLGY VGAVCAGCLS ARGHEVIGVD VSSTKIDLIN QGKSPIVEPG    50
    LEALLQQGRQ TGRLSGTTDF KKAVLDSDVS FICVGTPSKK NGDLDLGYIE 100
    TVCREIGFAI REKSERHTVV VRSTVLPGTV NNVVIPLIED CSGKKAGVDF 150
    GVGTNPEFLR ESTAIKDYDF PPMTVIGELD KQTGDLLEEI YRELDAPIIR 200
    KTVEVAEMIK YTCNVWHAAK VTFANEIGNI AKAVGVDGRE VMDVICQDHK 250
    LNLSRYYMRP GFAFGGSCLP KDVRALTYRA SQLDVEHPML GSLMRSNSNQ 300
    VQKAFDLITS HDTRKVGLLG LSFKAGTDDL RESPLVELAE MLIGKGYELR 350
    IFDRNVEYAR VHGANKEYIE SKIPHVSSLL VSDLDEVVAS SDVLVLGNGD 400
    ELFVDLVNKT PSGKKLVDLV GFMPHTTTAQ AEGICW 436
    Length:436
    Mass (Da):47,600
    Last modified:January 11, 2001 - v2
    Checksum:iB6F3DC2B70B04463
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti349 – 3491L → F in CAA68425. (PubMed:3108855)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y00337 Genomic DNA. Translation: CAA68425.1.
    AE004091 Genomic DNA. Translation: AAG06928.1.
    L22611 Genomic DNA. Translation: AAC36874.1.
    PIRiH83203.
    S07391. DEPSGD.
    RefSeqiNP_252230.1. NC_002516.2.

    Genome annotation databases

    EnsemblBacteriaiAAG06928; AAG06928; PA3540.
    GeneIDi879004.
    KEGGipae:PA3540.
    PATRICi19841693. VBIPseAer58763_3704.

    Cross-referencesi

    Web resourcesi

    Protein Spotlight

    Slime with a design - Issue 37 of August 2003

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y00337 Genomic DNA. Translation: CAA68425.1 .
    AE004091 Genomic DNA. Translation: AAG06928.1 .
    L22611 Genomic DNA. Translation: AAC36874.1 .
    PIRi H83203.
    S07391. DEPSGD.
    RefSeqi NP_252230.1. NC_002516.2.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1MFZ X-ray 2.80 A/B/C/D 1-436 [» ]
    1MUU X-ray 2.02 A/B/C/D 1-436 [» ]
    1MV8 X-ray 1.55 A/B/C/D 1-436 [» ]
    ProteinModelPortali P11759.
    SMRi P11759. Positions 1-436.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 208964.PA3540.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAG06928 ; AAG06928 ; PA3540 .
    GeneIDi 879004.
    KEGGi pae:PA3540.
    PATRICi 19841693. VBIPseAer58763_3704.

    Organism-specific databases

    PseudoCAPi PA3540.

    Phylogenomic databases

    eggNOGi COG1004.
    HOGENOMi HOG000153773.
    KOi K00066.
    OMAi GDLELDY.
    OrthoDBi EOG6ZSP7N.
    PhylomeDBi P11759.

    Enzyme and pathway databases

    UniPathwayi UPA00286 .
    BioCyci MetaCyc:MONOMER-14396.

    Miscellaneous databases

    EvolutionaryTracei P11759.

    Family and domain databases

    Gene3Di 3.40.50.720. 2 hits.
    InterProi IPR008927. 6-PGluconate_DH_C-like.
    IPR028358. GDPman_DH.
    IPR016040. NAD(P)-bd_dom.
    IPR017476. UDP-Glc/GDP-Man.
    IPR014027. UDP-Glc/GDP-Man_DH_C.
    IPR014026. UDP-Glc/GDP-Man_DH_dimer.
    IPR001732. UDP-Glc/GDP-Man_DH_N.
    [Graphical view ]
    PANTHERi PTHR11374. PTHR11374. 1 hit.
    Pfami PF00984. UDPG_MGDP_dh. 1 hit.
    PF03720. UDPG_MGDP_dh_C. 1 hit.
    PF03721. UDPG_MGDP_dh_N. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF500135. GDPman_DH. 1 hit.
    PIRSF000124. UDPglc_GDPman_dh. 1 hit.
    SMARTi SM00984. UDPG_MGDP_dh_C. 1 hit.
    [Graphical view ]
    SUPFAMi SSF48179. SSF48179. 1 hit.
    SSF52413. SSF52413. 1 hit.
    TIGRFAMsi TIGR03026. NDP-sugDHase. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Pseudomonas aeruginosa infection in cystic fibrosis: nucleotide sequence and transcriptional regulation of the algD gene."
      Deretic V., Gill J.F., Chakrabarty A.M.
      Nucleic Acids Res. 15:4567-4581(1987) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: 8830.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228.
    3. "Purification and characterization of guanosine diphospho-D-mannose dehydrogenase. A key enzyme in the biosynthesis of alginate by Pseudomonas aeruginosa."
      Roychoudhury S., May T.B., Gill J.F., Singh S.K., Feingold D.S., Chakrabarty A.M.
      J. Biol. Chem. 264:9380-9385(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 1-11, SUBUNIT, INHIBITION.
    4. "Characterization of guanosine diphospho-D-mannose dehydrogenase from Pseudomonas aeruginosa. Structural analysis by limited proteolysis."
      Roychoudhury S., Chakrabarty K., Ho Y.-K., Chakrabarty A.M.
      J. Biol. Chem. 267:990-996(1992) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 1-11; 280-289 AND 297-306.
    5. "Sequence of the alg8 and alg44 genes involved in the synthesis of alginate by Pseudomonas aeruginosa."
      Maharaj R., May T.B., Wang S.-K., Chakrabarty A.M.
      Gene 136:267-269(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 425-435.
      Strain: 8830.
    6. "Allosterism and cooperativity in Pseudomonas aeruginosa GDP-mannose dehydrogenase."
      Naught L.E., Gilbert S., Imhoff R., Snook C., Beamer L., Tipton P.
      Biochemistry 41:9637-9645(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: CHARACTERIZATION.
      Strain: ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228.
    7. "Crystal structure of GDP-mannose dehydrogenase: a key enzyme of alginate biosynthesis in P. aeruginosa."
      Snook C.F., Tipton P.A., Beamer L.J.
      Biochemistry 42:4658-4668(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS) IN COMPLEX WITH NAD AND PRODUCT.

    Entry informationi

    Entry nameiALGD_PSEAE
    AccessioniPrimary (citable) accession number: P11759
    Secondary accession number(s): Q9HY71
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1989
    Last sequence update: January 11, 2001
    Last modified: October 1, 2014
    This is version 137 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. Protein Spotlight
      Protein Spotlight articles and cited UniProtKB/Swiss-Prot entries
    4. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3