P06662 (NIFD_THIFE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Nitrogenase molybdenum-iron protein alpha chain
EC=1.18.6.1

Alternative name(s):
Dinitrogenase
Nitrogenase component I

Gene names

Name:

nifD

Organism

Thiobacillus ferrooxidans (Acidithiobacillus ferrooxidans)

Taxonomic identifier

920 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Acidithiobacillales › Acidithiobacillaceae › Acidithiobacillus

Protein attributes

Sequence length	489 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	This molybdenum-iron protein is part of the nitrogenase complex that catalyzes the key enzymatic reactions in nitrogen fixation.
Catalytic activity	8 reduced ferredoxin + 8 H+ + N2 + 16 ATP + 16 H2O = 8 oxidized ferredoxin + H2 + 2 NH3 + 16 ADP + 16 phosphate.
Cofactor	Binds 1 8Fe-7S cluster per heterodimer By similarity. Binds 1 7Fe-Mo-9S-X-homocitryl cluster per subunit. The identity of the X atom is not known, possibly carbon or oxygen By similarity.
Subunit structure	Tetramer of two alpha and two beta chains. Forms complex with the iron protein (nitrogenase component 2).
Sequence similarities	Belongs to the NifD/NifK/NifE/NifN family.

Ontologies

Keywords
Biological process	Nitrogen fixation
Ligand	ATP-binding Iron Iron-sulfur Metal-binding Molybdenum Nucleotide-binding
Molecular function	Oxidoreductase
Gene Ontology (GO)
Biological_process	nitrogen fixation Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	molybdenum-iron nitrogenase complex Inferred from electronic annotation. Source: InterPro
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW carbonyl sulfide nitrogenase activity Inferred from electronic annotation. Source: EC iron-sulfur cluster binding Inferred from electronic annotation. Source: UniProtKB-KW metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW nitrogenase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 489	489	Nitrogenase molybdenum-iron protein alpha chain		PRO_0000153084
Sites
	Metal binding	71	1	Iron-sulfur (8Fe-7S); shared with beta chain By similarity
	Metal binding	97	1	Iron-sulfur (8Fe-7S); shared with beta chain By similarity
	Metal binding	163	1	Iron-sulfur (8Fe-7S); shared with beta chain By similarity
	Metal binding	284	1	Molybdenum-iron-sulfur (7Fe-Mo-9S-X-homocitryl) By similarity
	Metal binding	451	1	Molybdenum-iron-sulfur (7Fe-Mo-9S-X-homocitryl); via pros nitrogen By similarity
Experimental info
	Sequence conflict	55	1	V → C Ref.2
	Sequence conflict	129	1	E → V Ref.2
	Sequence conflict	176	1	S → F Ref.2

Sequences

	Sequence		Length	Mass (Da)
	P06662 [UniParc]. Last modified April 1, 1990. Version 2. Checksum: 5FE4F2166370EA4C	FASTA	489	55,056
	10 20 30 40 50 60 MSISAEDLST QPQRRKLPEI AELIDETLKA YPEKFAKRRA KHLNVYEEGK SECDVKSNIK 70 80 90 100 110 120 SVPGVMTIRG CAYAGSYGVV WSPVKDMIHI SHGPVGCGHY ARAGRRAYYI GTTGVDTYTT 130 140 150 160 170 180 MHFTSDFQEK DIVFGGDKKL AKLMDELEEL FPMSKGITVQ SECPIGLIGD DIEAVSKKKA 190 200 210 220 230 240 AEFGKPVVPN RCEGFRGVSQ SLGHHIANDS IRDWVLDPAA DKHPDFESTP YDVTLLGDYN 250 260 270 280 290 300 IGGDWGSRII LEEMGLRVIA QWSGDAPSRS STASSKSKLN LLHCYRSVNY ITRHMEEKYG 310 320 330 340 350 360 IPYIEFNFFG PTKIKESLRQ IAAFFDESIQ EKAEKAIAKY QPQWDAVVEK FRPRLEGKKV 370 380 390 400 410 420 MLFVGGLRPG HTIGAFEDLG MEVIGTGYEF GHNDDYQRTT HEIKGNTLIY DDVTGYEFEK 430 440 450 460 470 480 FAEKLRPDLV ASGVKEKYIF QKMGFPFRQM HSWDYSGPYH GPDGFAIFAR DMDMAVNNPV WGLTQAPWK

References

[1]	"Sequence and structural analysis of the alpha- and beta-dinitrogenase subunits of Thiobacillus ferrooxidans." Rawlings D.E. Gene 69:337-343(1988) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 33020 / 11Fe.
[2]	"Nucleotide sequence of the gene encoding the nitrogenase iron protein of Thiobacillus ferrooxidans." Pretorius I.-M., Rawlings D.E., O'Neill E.G., Jones W.A., Kirby R., Woods D.R. J. Bacteriol. 169:367-370(1987) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].

Cross-references

Sequence databases
EMBL GenBank DDBJ	M15238 Genomic DNA. Translation: AAA27375.1.
PIR	NIBCAT. A91597.
3D structure databases
ProteinModelPortal	P06662.
SMR	P06662. Positions 19-489.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
InterPro	IPR000510. Nase/OxRdtase_comp1. IPR010143. Nase_comp1_asu. IPR000318. Nase_comp1_CS. IPR005972. Nase_Mo-Fe_asu. [Graphical view]
Pfam	PF00148. Oxidored_nitro. 1 hit. [Graphical view]
TIGRFAMs	TIGR01862. N2-ase-Ialpha. 1 hit. TIGR01282. nifD. 1 hit.
PROSITE	PS00699. NITROGENASE_1_1. 1 hit. PS00090. NITROGENASE_1_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

NIFD_THIFE

Accession

Primary (citable) accession number: P06662

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 1, 1988
Last sequence update:	April 1, 1990
Last modified:	April 3, 2013
This is version 71 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program