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P19066

- NIFD_RHISN

UniProt

P19066 - NIFD_RHISN

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Protein
Nitrogenase molybdenum-iron protein alpha chain
Gene
nifD1, NGR_a01120, y4vL
nifD2, NGR_a00880, y4xB
Organism
Rhizobium sp. (strain NGR234)
Status
Reviewed - Annotation score: 4 out of 5 - Protein inferred from homologyi

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 bindingi72 – 721Iron-sulfur (8Fe-7S); shared with beta chain By similarity
Metal bindingi98 – 981Iron-sulfur (8Fe-7S); shared with beta chain By similarity
Metal bindingi164 – 1641Iron-sulfur (8Fe-7S); shared with beta chain By similarity
Metal bindingi287 – 2871Molybdenum-iron-sulfur-carbon (7Fe-Mo-9S-C-homocitryl) By similarity
Metal bindingi454 – 4541Molybdenum-iron-sulfur-carbon (7Fe-Mo-9S-C-homocitryl); via pros nitrogen By 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
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Nitrogen fixation

Keywords - Ligandi

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

Enzyme and pathway databases

BioCyciRETL1328306-WGS:GSTH-5560-MONOMER.
SFRE394:GBYN-6139-MONOMER.
SFRE394:GBYN-6163-MONOMER.

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:nifD1
Ordered Locus Names:NGR_a01120
ORF Names:y4vL
AND
Name:nifD2
Ordered Locus Names:NGR_a00880
ORF Names:y4xB
Encoded oniPlasmid sym pNGR234a0 Publication
OrganismiRhizobium sp. (strain NGR234)
Taxonomic identifieri394 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeSinorhizobium/Ensifer groupSinorhizobium
ProteomesiUP000001054: Plasmid sym pNGR234a

Subcellular locationi

GO - Cellular componenti

  1. molybdenum-iron nitrogenase complex Source: InterPro

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 504504Nitrogenase molybdenum-iron protein alpha chain
PRO_0000153079Add
BLAST

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi394.NGR_a01120.

Structurei

3D structure databases

ProteinModelPortaliP19066.
SMRiP19066. Positions 13-492.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG2710.
HOGENOMiHOG000005528.
KOiK02586.
OMAiIDTFVTM.
OrthoDBiEOG6VHZ72.

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.

P19066-1 [UniParc]FASTAAdd to Basket

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MSLDYENDSA LHQELITQVL SQYPHKAAKR RQKHLSVASD REAVGEEGET    50
LSECDVKSNI KSIPGVMTIR GCAYAGSKGV VWGPVKDMVH ISHGPVGCGQ 100
YSWSQRRNYY VGTTGVDTFV TMQFTSDFQE KDIVFGGDKK LEQVIDEIEE 150
LFPLNNGITI QSECPIGLIG DDIEAVSRKK AAEHETTIVP VRCEGFRGVS 200
QSLGHHIAND AIRDWVFDKA DGKTDVEFET GPYDVNVIGD YNIGGDAWAS 250
RILLEEIGLR VVGNWSGDAT LAEVERAPRA KLNLIHCYRS MNYICRHMEE 300
RYAIPWMEYN FFGPSQIEAS LRKIARHFGP TIEERAERVI AKYRPLVDAV 350
IDKYWPRLQG KRVMLYVGGL RPRHVITAYE DLGMQIVGTG YEFAHNDDYQ 400
RTGHYVKTGT LIYDDATSYE LDTFIERIRP DLVGSGIKEK YPVQKMGIPF 450
RQMHSWDYSG PYHGYDGFAI FARDMDLAIN NPVWDLYDAP WKKMTVPTAA 500
VAAE 504
Length:504
Mass (Da):56,944
Last modified:November 1, 1997 - v2
Checksum:iD3BE3291A9D276DC
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti201 – 2011Q → K in AAA26328. 1 Publication
Sequence conflicti303 – 3031A → G in AAA26328. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U00090 Genomic DNA. Translation: AAB91900.1.
U00090 Genomic DNA. Translation: AAB91924.1.
M26961 Genomic DNA. Translation: AAA26330.1.
M26962 Genomic DNA. Translation: AAA26328.1.
PIRiPS0045.
T10829.
RefSeqiNP_444113.1. NC_000914.2.
NP_444137.1. NC_000914.2.
WP_010875129.1. NC_000914.2.

Genome annotation databases

EnsemblBacteriaiAAB91900; AAB91900; NGR_a01120.
AAB91924; AAB91924; NGR_a00880.
GeneIDi962482.
962502.
KEGGirhi:NGR_a00880.
rhi:NGR_a01120.
PATRICi32300883. VBIRhiSp122450_0077.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U00090 Genomic DNA. Translation: AAB91900.1 .
U00090 Genomic DNA. Translation: AAB91924.1 .
M26961 Genomic DNA. Translation: AAA26330.1 .
M26962 Genomic DNA. Translation: AAA26328.1 .
PIRi PS0045.
T10829.
RefSeqi NP_444113.1. NC_000914.2.
NP_444137.1. NC_000914.2.
WP_010875129.1. NC_000914.2.

3D structure databases

ProteinModelPortali P19066.
SMRi P19066. Positions 13-492.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 394.NGR_a01120.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAB91900 ; AAB91900 ; NGR_a01120 .
AAB91924 ; AAB91924 ; NGR_a00880 .
GeneIDi 962482.
962502.
KEGGi rhi:NGR_a00880.
rhi:NGR_a01120.
PATRICi 32300883. VBIRhiSp122450_0077.

Phylogenomic databases

eggNOGi COG2710.
HOGENOMi HOG000005528.
KOi K02586.
OMAi IDTFVTM.
OrthoDBi EOG6VHZ72.

Enzyme and pathway databases

BioCyci RETL1328306-WGS:GSTH-5560-MONOMER.
SFRE394:GBYN-6139-MONOMER.
SFRE394:GBYN-6163-MONOMER.

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. "Molecular basis of symbiosis between Rhizobium and legumes."
    Freiberg C.A., Fellay R., Bairoch A., Broughton W.J., Rosenthal A., Perret X.
    Nature 387:394-401(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NGR234.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NGR234.
  3. "Structural and functional analysis of nitrogenase genes from the broad-host-range Rhizobium strain ANU240."
    Badenoch-Jones J., Holton T.A., Morrison C.M., Scott K.F., Shine J.
    Gene 77:141-153(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-16 AND 199-393.
    Strain: ANU 240.

Entry informationi

Entry nameiNIFD_RHISN
AccessioniPrimary (citable) accession number: P19066
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: November 1, 1997
Last modified: September 3, 2014
This is version 97 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

Complete proteome, Plasmid

Documents

  1. Rhizobium plasmid pNGR234a
    Rhizobium plasmid pNGR234a: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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