Reviewed, UniProtKB/Swiss-Prot Q89EN5 (NAPA_BRAJA)

Names and origin

Protein names

Recommended name:
    Periplasmic nitrate reductase
    EC=1.7.99.4

Gene names

Name:	napA
Ordered Locus Names:	blr7038

Organism

Bradyrhizobium japonicum [Complete proteome] [HAMAP]

Taxonomic identifier

375 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Bradyrhizobiaceae › Bradyrhizobium

Protein attributes

Sequence length	837 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	Catalytic subunit of the periplasmic nitrate reductase (NAP). Only expressed at high levels during aerobic growth. NapAB complex receives electrons from the membrane-anchored tetraheme protein napC, thus allowing electron flow between membrane and periplasm. Essential function for nitrate assimilation and may have a role in anaerobic metabolism By similarity.
Catalytic activity	Nitrite + acceptor = nitrate + reduced acceptor.
Cofactor	Binds 1 4Fe-4S cluster By similarity. Binds 1 molybdenum ion per subunit By similarity. Binds 2 molybdopterin guanine dinucleotide (MGD) groups per subunit By similarity.
Subunit structure	Interacts with napB By similarity.
Subcellular location	PeriplasmBy similarity.
Post-translational modification	Predicted to be exported by the Tat system. The position of the signal peptide cleavage has not been experimentally proven.
Sequence similarities	Belongs to the prokaryotic molybdopterin-containing oxidoreductase family. NasA/napA/narB subfamily.

Ontologies

Keywords
Biological process	Electron transport Nitrate assimilation Transport
Cellular component	Periplasm
Domain	Signal
Ligand	4Fe-4S Iron Iron-sulfur Metal-binding Molybdenum
Molecular function	Oxidoreductase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	Mo-molybdopterin cofactor biosynthetic process Inferred from electronic annotation. Source: HAMAP electron transport chain Inferred from electronic annotation. Source: UniProtKB-KW nitrate assimilation Inferred from electronic annotation. Source: HAMAP transport Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	periplasmic space Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	4 iron, 4 sulfur cluster binding Inferred from electronic annotation. Source: InterPro electron carrier activity Inferred from electronic annotation. Source: HAMAP iron ion binding Inferred from electronic annotation. Source: HAMAP molybdenum ion binding Inferred from electronic annotation. Source: InterPro nitrate reductase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 32	32	Tat-type signal Potential
	Chain	33 – 837	805	Periplasmic nitrate reductase		PRO_0000045979
Sites
	Metal binding	51	1	Iron-sulfur (4Fe-4S) By similarity
	Metal binding	54	1	Iron-sulfur (4Fe-4S) By similarity
	Metal binding	58	1	Iron-sulfur (4Fe-4S) By similarity
	Metal binding	86	1	Iron-sulfur (4Fe-4S) By similarity
Experimental info
	Sequence conflict	282	1	K → N in AAG31648. Ref.2
	Sequence conflict	307 – 308	2	GL → RV in AAG31648. Ref.2
	Sequence conflict	326 – 331	6	DSTDMS → RNDPRQD Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Q89EN5-1 [UniParc]. Last modified June 1, 2003. Version 1. Checksum: 0F5976FF14FDD5CE	FASTA	837	94,215
	10 20 30 40 50 60 MTSPKLDRRQ MLKLEAAAIA AAAAGLPVPA LAANLATERE VSELKWDKAA CRFCGTGCSV 70 80 90 100 110 120 MVATKENRVV ATHGDIKAEV NRGLNCVKGY FLSKIMYGHD RLTQPMLRKA NGKYDKNGDF 130 140 150 160 170 180 TPVSWTEAFD IMEVKWKEAM KKRGPNGVAM FGSGQWTIWE GYAASKLFKA GFRTNNIDPN 190 200 210 220 230 240 ARHCMASAVA GMMRTFGIDE PPGCYDDIEA TDAFVLWGSN MAEMHPILWT RLTDRRLSAP 250 260 270 280 290 300 HVRVAVLSTF EHRSFDLADI GMVFKPQTDL YLLNAIANHI IKTGRVNKDF VAAHTVFRRG 310 320 330 340 350 360 QTDIGYGLRP EHPLQKKATG AAKANDSTDM SYDEYVKFVS EYTLEKAAEM SGVPLNRLEA 370 380 390 400 410 420 LAELYADPKT KVVSFWTMGF NQHTRGVWCN NLVYNIHLLT GKISSPGNSP FSLTGQPSAC 430 440 450 460 470 480 GTAREVGTFS HRLPADMVVT NKEHRTKAEH IWQLPEGTIP DKPGAHAVLQ SRMLKDGLIN 490 500 510 520 530 540 AYWVQVNNNL QAGPNANEET YPGFRNPDNF IVVSDAYPSV TALAADLILP TAMWVEKEGA 550 560 570 580 590 600 YGNAERRTQF WHQLVPAPGE SKSDLWQLME FSKRFKIEEV WPEELIAKKP EVRGKTLFDV 610 620 630 640 650 660 LYKNGQVDKF PVSDIEQGYL NDESKAFGFY VHKGLFEEYA SFGRGHGHDL APFDAYHKER 670 680 690 700 710 720 GLRWPVVNGQ ETRWRFREGS DPYVKQGTDV QFYGYPDGKA RIFALPYEPA AESPDGEYPF 730 740 750 760 770 780 WLSTGRVLEH WHSGTMTRRV PELYKAFPEA VCFMHPDDAQ EAKIRRGDEV KVVSRRGFIR 790 800 810 820 830 VRVETRGRDR PPRGLVFVPW FDESKLINKV TLDATDPISL QTDFKKCAVR IERVNVS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110." Kaneko T., Nakamura Y., Sato S., Minamisawa K., Uchiumi T., Sasamoto S., Watanabe A., Idesawa K., Iriguchi M., Kawashima K., Kohara M., Matsumoto M., Shimpo S., Tsuruoka H., Wada T., Yamada M., Tabata S. DNA Res. 9:189-197(2002) [PubMed: 12597275] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: USDA 110.
[2]	"The Bradyrhizobium japonicum napEDABC genes encoding the periplasmic nitrate reductase are essential for nitrate respiration." Delgado M., Bonnard N., Tresierra-Ayala A., Bedmar E.J., Muller P. Microbiology 149:3395-3403(2003) [PubMed: 14663073] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: USDA 110spc4.

Cross-references

Sequence databases
EMBLGenBankDDBJ	BA000040 Genomic DNA. Translation: BAC52303.1. AF314590 Genomic DNA. Translation: AAG31648.2.
RefSeq	NP_773678.1.
3D structure databases
HSSP	HSSP built from PDB template 1OGY based on UniProtKB Q53176.
SMR	Q89EN5. Positions 44-833.
ModBase	Search...
Genome annotation databases
GeneID	1048006.
GenomeReviews	Gene locus blr7038 in contig BA000040_GR.
KEGG	bja:blr7038.
NMPDR	fig|224911.1.peg.7038.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q89EN5.
Enzyme and pathway databases
BioCyc	BJAP224911:BLR7038-MON.
Family and domain databases
HAMAP	MF_01630. [Tree]
InterPro	IPR009010. Asp_de-COase-like_fold. IPR006656. Mopterin_OxRdtase. IPR006963. Mopterin_OxRdtase_Fe4S4. IPR006655. Mopterin_OxRdtase_prok_CS. IPR006657. MPT_dinuc_bd. IPR010051. NO3_reductase_lsu_periplasm. IPR006311. Tat. [Graphical view]
Gene3D	G3DSA:2.40.40.20. Asp_decarboxylase-like_fold. 1 hit.
Pfam	PF04879. Molybdop_Fe4S4. 1 hit. PF00384. Molybdopterin. 1 hit. PF01568. Molydop_binding. 1 hit. [Graphical view]
TIGRFAMs	TIGR01706. NAPA. 1 hit. TIGR01409. TAT_signal_seq. 1 hit.
PROSITE	PS00551. MOLYBDOPTERIN_PROK_1. 1 hit. PS00490. MOLYBDOPTERIN_PROK_2. False negative. PS00932. MOLYBDOPTERIN_PROK_3. False negative. PS51318. TAT. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

NAPA_BRAJA

Accession

Primary (citable) accession number: Q89EN5
Secondary accession number(s): Q9F5L3

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 7, 2006
Last sequence update:	June 1, 2003
Last modified:	November 25, 2008
This is version 42 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)