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Protein

Nitrogenase molybdenum-iron protein alpha chain

Gene

nifD

Organism
Methanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) (Methanobacterium thermoautotrophicum)
Status
Reviewed-Annotation score: Annotation score: 3 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

Protein has several cofactor binding sites:

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi48 – 481Iron-sulfur (8Fe-7S); shared with beta chainBy similarity
Metal bindingi74 – 741Iron-sulfur (8Fe-7S); shared with beta chainBy similarity
Metal bindingi147 – 1471Iron-sulfur (8Fe-7S); shared with beta chainBy similarity
Metal bindingi265 – 2651Molybdenum-iron-sulfur-carbon (7Fe-Mo-9S-C-homocitryl)By similarity
Metal bindingi431 – 4311Molybdenum-iron-sulfur-carbon (7Fe-Mo-9S-C-homocitryl); via pros nitrogenBy similarity

GO - Molecular functioni

GO - Biological processi

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

BioCyciMMAR79929:GH5J-149-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:nifD
Ordered Locus Names:MTBMA_c01490
OrganismiMethanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) (Methanobacterium thermoautotrophicum)
Taxonomic identifieri79929 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanobacteriaMethanobacterialesMethanobacteriaceaeMethanothermobacter
ProteomesiUP000000345 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 470470Nitrogenase molybdenum-iron protein alpha chainPRO_0000153074Add
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

STRINGi79929.MTBMA_c01490.

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000005528.
KOiK02586.
OMAiKCIPERK.

Family and domain databases

InterProiIPR000510. Nase/OxRdtase_comp1.
IPR005974. Nase_asu.
IPR010143. Nase_comp1_asu.
IPR000318. Nase_comp1_CS.
[Graphical view]
PfamiPF00148. Oxidored_nitro. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01284. alt_nitrog_alph. 1 hit.
TIGR01862. N2-ase-Ialpha. 1 hit.
PROSITEiPS00090. NITROGENASE_1_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q50788-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPFELFGVDA EIPDRKKHIY VKKQGDPEGD IPACNTTTIP GCMTERGCAF
60 70 80 90 100
AGAKGVITGA IKDALHVIHS PVGCTAYGYG TKRYPTSQEM PDGSMFPIEK
110 120 130 140 150
FNLKYITGTD LSESDVVFGG MDKLKRCILE AVREFPEANA VYTYATCTTG
160 170 180 190 200
LIGDDIDAIS REVSEEIGKD VVAINAPGFA GPTQSKGHQV ANYTLFEDLV
210 220 230 240 250
GTAEPPRTTE YDVNLIGEYN IDGDLWVLKK YFEEMGINVL STFTGDCCHD
260 270 280 290 300
EIKWMHRAKL SLVRCQRSAN YIAKLLEERY GVPYMKVDFF GIEYCRKNLM
310 320 330 340 350
AIGEYFGIPE RAERVIEDRM KKIGPEIQYF KDKLRGKRVW VFSGGPKNWH
360 370 380 390 400
LPRPLEDELG MEVVAVSTMF EHEDGYEKIK KRVREGTVIV DDPNSLELEE
410 420 430 440 450
IIEKYRPDII LSGIKEKYLA HKLGVPCILI HSYENGPYIG FEGFLNLARD
460 470
MYAAIYNPVW DLLEFEEDVN
Length:470
Mass (Da):53,057
Last modified:November 30, 2010 - v3
Checksum:i9419CE510DB68CD9
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti348 – 3481N → I in CAA61219 (Ref. 1) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X87971 Genomic DNA. Translation: CAA61219.1.
CP001710 Genomic DNA. Translation: ADL57758.1.
PIRiS63551.
RefSeqiWP_013294986.1. NC_014408.1.
YP_003849071.1. NC_014408.1.

Genome annotation databases

EnsemblBacteriaiADL57758; ADL57758; MTBMA_c01490.
GeneIDi9703854.
KEGGimmg:MTBMA_c01490.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X87971 Genomic DNA. Translation: CAA61219.1.
CP001710 Genomic DNA. Translation: ADL57758.1.
PIRiS63551.
RefSeqiWP_013294986.1. NC_014408.1.
YP_003849071.1. NC_014408.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi79929.MTBMA_c01490.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADL57758; ADL57758; MTBMA_c01490.
GeneIDi9703854.
KEGGimmg:MTBMA_c01490.

Phylogenomic databases

HOGENOMiHOG000005528.
KOiK02586.
OMAiKCIPERK.

Enzyme and pathway databases

BioCyciMMAR79929:GH5J-149-MONOMER.

Family and domain databases

InterProiIPR000510. Nase/OxRdtase_comp1.
IPR005974. Nase_asu.
IPR010143. Nase_comp1_asu.
IPR000318. Nase_comp1_CS.
[Graphical view]
PfamiPF00148. Oxidored_nitro. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01284. alt_nitrog_alph. 1 hit.
TIGR01862. N2-ase-Ialpha. 1 hit.
PROSITEiPS00090. NITROGENASE_1_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Hochheimer A.
    Submitted (FEB-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg.
  2. "Complete genome sequence of Methanothermobacter marburgensis, a methanoarchaeon model organism."
    Liesegang H., Kaster A.K., Wiezer A., Goenrich M., Wollherr A., Seedorf H., Gottschalk G., Thauer R.K.
    J. Bacteriol. 192:5850-5851(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg.
  3. "The tungsten formylmethanofuran dehydrogenase from Methanobacterium thermoautotrophicum contains sequence motifs characteristic for enzymes containing molybdopterin dinucleotide."
    Hochheimer A., Schmitz R.A., Thauer R.K., Hedderich R.
    Eur. J. Biochem. 234:910-920(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-220.
    Strain: DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg.

Entry informationi

Entry nameiNIFD_METTM
AccessioniPrimary (citable) accession number: Q50788
Secondary accession number(s): D9PU60, P97185
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 30, 2010
Last modified: June 24, 2015
This is version 80 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.