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P06769

- NIFD_RHICP

UniProt

P06769 - NIFD_RHICP

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Protein

Nitrogenase molybdenum-iron protein alpha chain

Gene
nifD
Organism
Rhizobium sp. cowpea (strain IRc78)
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 bindingi67 – 671Iron-sulfur (8Fe-7S); shared with beta chain By similarity
Metal bindingi93 – 931Iron-sulfur (8Fe-7S); shared with beta chain By similarity
Metal bindingi159 – 1591Iron-sulfur (8Fe-7S); shared with beta chain By 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 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

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
Complete GO annotation...

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.

Family & Domainsi

Sequence similaritiesi

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

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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: January 22, 2014
This is version 79 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

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