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P06769

- NIFD_RHICP

UniProt

P06769 - NIFD_RHICP

Protein

Nitrogenase molybdenum-iron protein alpha chain

Gene

nifD

Organism
Rhizobium sp. cowpea (strain IRc78)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 80 (01 Oct 2014)
      Sequence version 1 (01 Jan 1988)
      Previous versions | rss
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    Functioni

    This molybdenum-iron protein is part of the nitrogenase complex that catalyzes the key enzymatic reactions in nitrogen fixation.

    Catalytic activityi

    8 reduced ferredoxin + 8 H+ + N2 + 16 ATP + 16 H2O = 8 oxidized ferredoxin + H2 + 2 NH3 + 16 ADP + 16 phosphate.

    Cofactori

    Binds 1 8Fe-7S cluster per heterodimer.By similarity
    Binds 1 7Fe-Mo-9S-C-homocitryl cluster per subunit.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi67 – 671Iron-sulfur (8Fe-7S); shared with beta chainBy similarity
    Metal bindingi93 – 931Iron-sulfur (8Fe-7S); shared with beta chainBy similarity
    Metal bindingi159 – 1591Iron-sulfur (8Fe-7S); shared with beta chainBy similarity
    Metal bindingi283 – 2831Molybdenum-iron-sulfur-carbon (7Fe-Mo-9S-C-homocitryl)By similarity
    Metal bindingi451 – 4511Molybdenum-iron-sulfur-carbon (7Fe-Mo-9S-C-homocitryl); via pros nitrogenBy similarity

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. carbonyl sulfide nitrogenase activity Source: UniProtKB-EC
    3. iron-sulfur cluster binding Source: UniProtKB-KW
    4. metal ion binding Source: UniProtKB-KW
    5. nitrogenase activity Source: UniProtKB-EC

    GO - Biological processi

    1. nitrogen fixation Source: UniProtKB-KW

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Nitrogen fixation

    Keywords - Ligandi

    ATP-binding, Iron, Iron-sulfur, Metal-binding, Molybdenum, Nucleotide-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Nitrogenase molybdenum-iron protein alpha chain (EC:1.18.6.1)
    Alternative name(s):
    Dinitrogenase
    Nitrogenase component I
    Gene namesi
    Name:nifD
    OrganismiRhizobium sp. cowpea (strain IRc78)
    Taxonomic identifieri400 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupRhizobium

    Subcellular locationi

    GO - Cellular componenti

    1. molybdenum-iron nitrogenase complex Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 500500Nitrogenase molybdenum-iron protein alpha chainPRO_0000153078Add
    BLAST

    Interactioni

    Subunit structurei

    Tetramer of two alpha and two beta chains. Forms complex with the iron protein (nitrogenase component 2).

    Structurei

    Secondary structure

    1
    500
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi9 – 135
    Beta strandi14 – 174
    Helixi19 – 246
    Helixi29 – 3810
    Beta strandi39 – 413
    Helixi68 – 725
    Helixi73 – 775
    Beta strandi83 – 9210
    Helixi93 – 975
    Turni98 – 1003
    Turni110 – 1123
    Helixi125 – 1306
    Helixi133 – 14614
    Beta strandi153 – 1575
    Helixi159 – 1646
    Helixi168 – 17710
    Turni178 – 1803
    Beta strandi184 – 1874
    Beta strandi193 – 1964
    Helixi197 – 21115
    Helixi213 – 2164
    Beta strandi217 – 2215
    Beta strandi230 – 2356
    Helixi242 – 25211
    Beta strandi256 – 2605
    Helixi267 – 2726
    Helixi273 – 2753
    Beta strandi277 – 2826
    Helixi284 – 29815
    Beta strandi302 – 3043
    Helixi310 – 32213
    Helixi326 – 35429
    Beta strandi358 – 3614
    Beta strandi363 – 3664
    Helixi367 – 3704
    Helixi372 – 3776
    Beta strandi381 – 3899
    Helixi392 – 40110
    Beta strandi408 – 4125
    Helixi415 – 42511
    Beta strandi428 – 4325
    Helixi434 – 44310
    Beta strandi447 – 4493
    Turni450 – 4523
    Helixi453 – 4553
    Helixi461 – 47616
    Helixi479 – 4846
    Beta strandi487 – 4893

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1LFXmodel-A1-500[»]
    ProteinModelPortaliP06769.
    SMRiP06769. Positions 13-489.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the NifD/NifK/NifE/NifN family.Curated

    Family and domain databases

    InterProiIPR000510. Nase/OxRdtase_comp1.
    IPR010143. Nase_comp1_asu.
    IPR000318. Nase_comp1_CS.
    IPR005972. Nase_Mo-Fe_asu.
    [Graphical view]
    PfamiPF00148. Oxidored_nitro. 1 hit.
    [Graphical view]
    TIGRFAMsiTIGR01862. N2-ase-Ialpha. 1 hit.
    TIGR01282. nifD. 1 hit.
    PROSITEiPS00699. NITROGENASE_1_1. 1 hit.
    PS00090. NITROGENASE_1_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P06769-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSLASTQSIA EIRARNKELI QEVLKVYPEK TAKRRAKHLN VHQAGKSDCG    50
    VKSNIKSIPG VMTIRGCAYA GSKGVVWGPI KDMVHISHGP VGCGQYSWGS 100
    RRNYYVGTTG IDSFVTLQFT FDFREKDIVF GGDKKLVKIL DEIQELFPLN 150
    NGITIQSECP IGLIGDDIEA VSRAKSKEYG GKTIVPVRCE GFRGVSQSLG 200
    HHIANDAVRD WIFDQVEADG KPKVEPTPYD VAIIGDYNIG GDAWSSRILL 250
    EEMGLRVIAQ WSGDGSLAEL EANVEGKLNI LHCYRSMNYI SRHMEEKFGI 300
    PWCEYNFFGP SKIAESLRRI AGYFDDKIKE GAERVIEKYQ PLVNAVIAKY 350
    RPRLEGKTVM LYVGGLRSRH VIGAYEDLGM EVIGTGYEFG HNDDYQRTAQ 400
    HYVKDGTLIH DDVNGYEFER FVEKLQPDLV GSGIKEKYVF QKMGGPFRQM 450
    HSWDYSGPYH GYDGFAIFAR DMDMAINSPV WKKTKAPWKE ASRAKLLAAE 500
    Length:500
    Mass (Da):56,136
    Last modified:January 1, 1988 - v1
    Checksum:i5F7FA8DDE2174CDF
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M10203 Genomic DNA. Translation: AAA26308.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M10203 Genomic DNA. Translation: AAA26308.1 .

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1LFX model - A 1-500 [» ]
    ProteinModelPortali P06769.
    SMRi P06769. Positions 13-489.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Family and domain databases

    InterProi IPR000510. Nase/OxRdtase_comp1.
    IPR010143. Nase_comp1_asu.
    IPR000318. Nase_comp1_CS.
    IPR005972. Nase_Mo-Fe_asu.
    [Graphical view ]
    Pfami PF00148. Oxidored_nitro. 1 hit.
    [Graphical view ]
    TIGRFAMsi TIGR01862. N2-ase-Ialpha. 1 hit.
    TIGR01282. nifD. 1 hit.
    PROSITEi PS00699. NITROGENASE_1_1. 1 hit.
    PS00090. NITROGENASE_1_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Structural genes of dinitrogenase and dinitrogenase reductase are transcribed from two separate promoters in the broad host range cowpea Rhizobium strain IRc78."
      Yun A.C., Szalay A.A.
      Proc. Natl. Acad. Sci. U.S.A. 81:7358-7362(1984) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].

    Entry informationi

    Entry nameiNIFD_RHICP
    AccessioniPrimary (citable) accession number: P06769
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 1, 1988
    Last sequence update: January 1, 1988
    Last modified: October 1, 2014
    This is version 80 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

    3D-structure

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3