Ferredoxin--nitrite reductase, chloroplastic precursor - Arabidopsis thaliana (Mouse-ear cress)

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Reviewed, UniProtKB/Swiss-Prot Q39161 (NIR_ARATH)

Last modified November 25, 2008. Version 61. History...

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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein names

Recommended name:
    Ferredoxin--nitrite reductase, chloroplastic
      Short name=NiR
    EC=1.7.7.1

Gene names

Name:	NIR1
Synonyms:	NIR
Ordered Locus Names:	At2g15620
ORF Names:	F9O13.17

Organism

Arabidopsis thaliana (Mouse-ear cress) [Complete proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › eurosids II › Brassicales › Brassicaceae › Arabidopsis

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Protein attributes

Sequence length	586 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

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General annotation (Comments)

Function	Catalyzes the six-electron reduction of nitrite to ammonium.
Catalytic activity	NH(3) + 2 H(2)O + 6 oxidized ferredoxin = nitrite + 6 reduced ferredoxin + 7 H(+).
Cofactor	Binds 1 siroheme per subunit. Binds 1 4Fe-4S cluster per subunit.
Pathway	Nitrogen metabolism; nitrate reduction (assimilation).
Subunit structure	Monomer.
Subcellular location	Plastid › chloroplast.
Induction	By nitrate and by light.
Sequence similarities	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family.

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Ontologies

Keywords
Biological process	Electron transport Nitrate assimilation Transport
Cellular component	Chloroplast Plastid
Domain	Repeat Transit peptide
Ligand	4Fe-4S Heme Iron Iron-sulfur Metal-binding
Molecular function	Oxidoreductase
PTM	Ubl conjugation
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	electron transport chain Inferred from electronic annotation. Source: UniProtKB-KW nitrate assimilation Inferred from electronic annotation. Source: UniProtKB-KW transport Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	apoplast Inferred from direct assay. Source: TAIR chloroplast Inferred from electronic annotation. Source: UniProtKB-KW stromule Inferred from direct assay. Source: TAIR
Molecular function	4 iron, 4 sulfur cluster binding Inferred from electronic annotation. Source: UniProtKB-KW electron carrier activity Inferred from electronic annotation. Source: InterPro ferredoxin-nitrite reductase activity Inferred from electronic annotation. Source: EC heme binding Inferred from electronic annotation. Source: InterPro iron ion binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

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Binary interactions

With	Entry	#Exp.	IntAct	Notes
TRX3	Q42403	1	EBI-449330,EBI-449157

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Transit peptide

1 – 25

Chloroplast Potential

Chain

26 – 586

561

Ferredoxin--nitrite reductase, chloroplastic

PRO_0000019703

Sites

Metal binding

464

Iron-sulfur (4Fe-4S) By similarity

Metal binding

470

Iron-sulfur (4Fe-4S) By similarity

Metal binding

505

Iron-sulfur (4Fe-4S) By similarity

Metal binding

509

Iron (siroheme axial ligand) By similarity

Metal binding

509

Iron-sulfur (4Fe-4S) By similarity

Amino acid modifications

Cross-link

103

Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)

Experimental info

Sequence conflict

R → G in AAN31831. Ref.4

Sequence conflict

214

P → Q in AAN31830. Ref.4

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Sequences

Sequence

Length

Mass (Da)

Tools

Q39161-1 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: 6AACF1FE9FF7E1F2
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FASTA

586

65,505

        10         20         30         40         50         60 
MTSFSLTFTS PLLPSSSTKP KRSVLVAAAQ TTAPAESTAS VDADRLEPRV ELKDGFFILK 

        70         80         90        100        110        120 
EKFRKGINPQ EKVKIEREPM KLFMENGIEE LAKKSMEELD SEKSSKDDID VRLKWLGLFH 

       130        140        150        160        170        180 
RRKHQYGKFM MRLKLPNGVT TSAQTRYLAS VIRKYGEDGC ADVTTRQNWQ IRGVVLPDVP 

       190        200        210        220        230        240 
EILKGLASVG LTSLQSGMDN VRNPVGNPIA GIDPEEIVDT RPYTNLLSQF ITANSQGNPD 

       250        260        270        280        290        300 
FTNLPRKWNV CVVGTHDLYE HPHINDLAYM PANKDGRFGF NLLVGGFFSP KRCEEAIPLD 

       310        320        330        340        350        360 
AWVPADDVLP LCKAVLEAYR DLGTRGNRQK TRMMWLIDEL GVEGFRTEVE KRMPNGKLER 

       370        380        390        400        410        420 
GSSEDLVNKQ WERRDYFGVN PQKQEGLSFV GLHVPVGRLQ ADDMDELARL ADTYGSGELR 

       430        440        450        460        470        480 
LTVEQNIIIP NVETSKTEAL LQEPFLKNRF SPEPSILMKG LVACTGSQFC GQAIIETKLR 

       490        500        510        520        530        540 
ALKVTEEVER LVSVPRPIRM HWTGCPNTCG QVQVADIGFM GCLTRGEEGK PVEGADVYVG 

       550        560        570        580 
GRIGSDSHIG EIYKKGVRVT ELVPLVAEIL IKEFGAVPRE REENED

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Nucleotide sequence of a gene for nitrite reductase from Arabidopsis thaliana." Tanaka T., Ida S., Irifune K., Oeda K., Morikawa H. DNA Seq. 5:57-61(1994) [PubMed: 7894060] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: cv. Columbia.
[2]	Hara K., Komaba S., Takahashi M., Goshima N., Morikawa H. Submitted (JUL-1997) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Strain: cv. C24. Tissue: Leaf.
[3]	"Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana." Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D., Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V., Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S., Cronin L.A. Venter J.C. Nature 402:761-768(1999) [PubMed: 10617197] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[4]	"Empirical analysis of transcriptional activity in the Arabidopsis genome." Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. Ecker J.R. Science 302:842-846(2003) [PubMed: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia.
[5]	"Nitrite reductase expression is regulated at the post-transcriptional level by the nitrogen source in Nicotiana plumbaginifolia and Arabidopsis thaliana." Crete P., Caboche M., Meyer C. Plant J. 11:625-634(1997) [PubMed: 9161026] [Abstract] Cited for: CHARACTERIZATION, INDUCTION.
[6]	"Nitrite reductase gene enrichment improves assimilation of NO(2) in Arabidopsis." Takahashi M., Sasaki Y., Ida S., Morikawa H. Plant Physiol. 126:731-741(2001) [PubMed: 11402201] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION.
[7]	"Multidimensional protein identification technology (MudPIT) analysis of ubiquitinated proteins in plants." Maor R., Jones A., Nuehse T.S., Studholme D.J., Peck S.C., Shirasu K. Mol. Cell. Proteomics 6:601-610(2007) [PubMed: 17272265] [Abstract] Cited for: UBIQUITINATION [LARGE SCALE ANALYSIS] AT LYS-103, MASS SPECTROMETRY.

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Cross-references

Sequence databases
	D14824 Genomic DNA. Translation: BAA03561.1. AB006032 mRNA. Translation: BAA21672.1. AC006248 Genomic DNA. Translation: AAD17406.1. AF360320 mRNA. Translation: AAK26030.1. AY045608 mRNA. Translation: AAK73966.1. AY093995 mRNA. Translation: AAM16256.1. AY142685 mRNA. Translation: AAN13223.1. BT000685 mRNA. Translation: AAN31830.1. BT000686 mRNA. Translation: AAN31831.1.
PIR	C84531.
RefSeq	NP_179164.1.
UniGene	At.21870
3D structure databases
SMR	Q39161. Positions 45-579.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q39161.
Genome annotation databases
GeneID	816055.
GenomeReviews	Gene locus AT2G15620 in contig CT485783_GR.
KEGG	ath:AT2G15620.
NMPDR	fig\|3702.1.peg.8566.
Organism-specific databases
GeneFarm	4362.
TAIR	At2g15620.
Gene expression databases
ArrayExpress	Q39161.
GermOnline	AT2G15620. Arabidopsis thaliana.
Family and domain databases
InterPro	IPR006066. Nir_Si_BS. IPR006067. Nir_Sir_4Fe4S. IPR005117. NiRdtase/SiRdtase_haem-b_fer. [Graphical view]
Pfam	PF01077. NIR_SIR. 2 hits. PF03460. NIR_SIR_ferr. 2 hits. [Graphical view]
PRINTS	PR00397. SIROHAEM.
PROSITE	PS00365. NIR_SIR. 1 hit. [Graphical view]
ProtoNet	Search...

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Entry information

Entry name

NIR_ARATH

Accession

Primary (citable) accession number: Q39161
Secondary accession number(s): Q8H163, Q8H164

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 11, 2004
Last sequence update:	November 1, 1996
Last modified:	November 25, 2008
This is version 61 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)

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Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

PATHWAY comments

Index of metabolic and biosynthesis pathways

SIMILARITY comments

Index of protein domains and families

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Keywords

Gene Ontology (GO)

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Sites

Amino acid modifications

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Genome annotation databases

Organism-specific databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents