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Protein

Periplasmic nitrate reductase

Gene

napA

Organism
Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

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.UniRule annotation

Catalytic activityi

Nitrite + acceptor = nitrate + reduced acceptor.UniRule annotation

Cofactori

Protein has several cofactor binding sites:
  • [4Fe-4S] clusterUniRule annotationNote: Binds 1 [4Fe-4S] cluster.UniRule annotation
  • Mo-bis(molybdopterin guanine dinucleotide)UniRule annotationNote: Binds 1 molybdenum-bis(molybdopterin guanine dinucleotide) (Mo-bis-MGD) cofactor per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi49 – 491Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi52 – 521Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi56 – 561Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi84 – 841Iron-sulfur (4Fe-4S)UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Electron transport, Nitrate assimilation, Transport

Keywords - Ligandi

4Fe-4S, Iron, Iron-sulfur, Metal-binding, Molybdenum

Enzyme and pathway databases

BioCyciDSHI398580:GKEL-3204-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Periplasmic nitrate reductaseUniRule annotation (EC:1.7.99.4UniRule annotation)
Gene namesi
Name:napAUniRule annotation
Ordered Locus Names:Dshi_3165
OrganismiDinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)
Taxonomic identifieri398580 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeDinoroseobacter
ProteomesiUP000006833 Componenti: Chromosome

Subcellular locationi

  • Periplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Periplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 3535Tat-type signalUniRule annotationAdd
BLAST
Chaini36 – 831796Periplasmic nitrate reductasePRO_0000335805Add
BLAST

Post-translational modificationi

Predicted to be exported by the Tat system. The position of the signal peptide cleavage has not been experimentally proven.

Interactioni

Subunit structurei

Interacts with NapB.UniRule annotation

Protein-protein interaction databases

STRINGi398580.Dshi_3165.

Structurei

3D structure databases

ProteinModelPortaliA8LLY9.
SMRiA8LLY9. Positions 41-830.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini42 – 98574Fe-4S Mo/W bis-MGD-typeUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the prokaryotic molybdopterin-containing oxidoreductase family. NasA/NapA/NarB subfamily.UniRule annotation
Contains 1 4Fe-4S Mo/W bis-MGD-type domain.UniRule annotation

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiCOG0243.
HOGENOMiHOG000031441.
KOiK02567.
OMAiCSERRYS.
OrthoDBiEOG6CVV7G.

Family and domain databases

HAMAPiMF_01630. Nitrate_reduct.
InterProiIPR009010. Asp_de-COase-like_dom.
IPR006657. MoPterin_dinucl-bd_dom.
IPR006656. Mopterin_OxRdtase.
IPR006963. Mopterin_OxRdtase_4Fe-4S_dom.
IPR027467. MopterinOxRdtase_cofactor_BS.
IPR010051. Periplasm_NO3_reductase_lsu.
IPR006311. TAT_signal.
[Graphical view]
PfamiPF04879. Molybdop_Fe4S4. 1 hit.
PF00384. Molybdopterin. 1 hit.
PF01568. Molydop_binding. 1 hit.
[Graphical view]
SMARTiSM00926. Molybdop_Fe4S4. 1 hit.
[Graphical view]
SUPFAMiSSF50692. SSF50692. 1 hit.
TIGRFAMsiTIGR01706. NAPA. 1 hit.
PROSITEiPS51669. 4FE4S_MOW_BIS_MGD. 1 hit.
PS00551. MOLYBDOPTERIN_PROK_1. 1 hit.
PS51318. TAT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

A8LLY9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTISDSRRTF LKASAAAATA SAAGIPLANG TAAEAQAIST GIRWDKAACR
60 70 80 90 100
FCGTGCSVLV GTKEGRVVAT QGDPDAPVNR GLNCIKGYFL SKIMYGEDRL
110 120 130 140 150
TMPLLRKTNG VYDKNGTFEP VSWDEAFDVM AQKWKEALAK KGPTSVGMFG
160 170 180 190 200
SGQWTVWEGY AAAKLMKAGF RSNNIDPNAR HCMASAVVGF MRTFGIDEPM
210 220 230 240 250
GCYDDFEHAD TFVLWGSNMA EMHPILWSRL TDTRLTKPGS EVHVLSTYEH
260 270 280 290 300
RSFELADNGM VFAPQTDLAI LNYIANYIIS TGRVNEDFMS KHVNITKTAT
310 320 330 340 350
DIGYGLRDEH ALQQEAENPN SGKLEPISFD EYAASVAEYT VDKVSELSGV
360 370 380 390 400
PAAQLEKLAE QYADPNRKVM SLWTMGFNQH TRGSWVNSLM YNVHLLVGKI
410 420 430 440 450
SEPGNSPFSL TGQPSACGTA REVGTFAHRL PADMVVMNDA HRALTEKKWN
460 470 480 490 500
LPEGTIPAKP GFHAVLQHRK LKDGDLNAYW VQCNNNMQAA PNMNEEGYPG
510 520 530 540 550
YRNPENFITV SDPYPTVTTM SADLILPTAM WVEKEGAYGN AERRTQFWRQ
560 570 580 590 600
QVKAPGEAKS DLWQLMEFSK RFTIEEVWGE ELLAKMPEHR GKTMYDVLFA
610 620 630 640 650
NGKVDKYPLS ETAEGFDNDE SEHFGYYVQK GLFEEYAGFG RGKAHDLASF
660 670 680 690 700
ETYHQSRGLR WPVVDGQETL YRFREGYDPY VPEGEGVRFY GHSDGKAKII
710 720 730 740 750
YAPYEPAPEV PDAEFDLWLC TGRVLEHWHS GSMTRRVPEL HRAYPAAVVY
760 770 780 790 800
MHPEDAKARG LRRGQEINIS TRRGDMLSRV ETRGRNKVPQ GLVFVPWFDE
810 820 830
GQLINQLTLD ATCPLSKETD FKKCACKVER A
Length:831
Mass (Da):92,890
Last modified:December 4, 2007 - v1
Checksum:i0D8369C67278F4D9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000830 Genomic DNA. Translation: ABV94898.1.
RefSeqiWP_012179825.1. NC_009952.1.
YP_001534499.1. NC_009952.1.

Genome annotation databases

EnsemblBacteriaiABV94898; ABV94898; Dshi_3165.
KEGGidsh:Dshi_3165.
PATRICi21819127. VBIDinShi9476_3294.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000830 Genomic DNA. Translation: ABV94898.1.
RefSeqiWP_012179825.1. NC_009952.1.
YP_001534499.1. NC_009952.1.

3D structure databases

ProteinModelPortaliA8LLY9.
SMRiA8LLY9. Positions 41-830.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi398580.Dshi_3165.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABV94898; ABV94898; Dshi_3165.
KEGGidsh:Dshi_3165.
PATRICi21819127. VBIDinShi9476_3294.

Phylogenomic databases

eggNOGiCOG0243.
HOGENOMiHOG000031441.
KOiK02567.
OMAiCSERRYS.
OrthoDBiEOG6CVV7G.

Enzyme and pathway databases

BioCyciDSHI398580:GKEL-3204-MONOMER.

Family and domain databases

HAMAPiMF_01630. Nitrate_reduct.
InterProiIPR009010. Asp_de-COase-like_dom.
IPR006657. MoPterin_dinucl-bd_dom.
IPR006656. Mopterin_OxRdtase.
IPR006963. Mopterin_OxRdtase_4Fe-4S_dom.
IPR027467. MopterinOxRdtase_cofactor_BS.
IPR010051. Periplasm_NO3_reductase_lsu.
IPR006311. TAT_signal.
[Graphical view]
PfamiPF04879. Molybdop_Fe4S4. 1 hit.
PF00384. Molybdopterin. 1 hit.
PF01568. Molydop_binding. 1 hit.
[Graphical view]
SMARTiSM00926. Molybdop_Fe4S4. 1 hit.
[Graphical view]
SUPFAMiSSF50692. SSF50692. 1 hit.
TIGRFAMsiTIGR01706. NAPA. 1 hit.
PROSITEiPS51669. 4FE4S_MOW_BIS_MGD. 1 hit.
PS00551. MOLYBDOPTERIN_PROK_1. 1 hit.
PS51318. TAT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 16493 / NCIMB 14021 / DFL 12.

Entry informationi

Entry nameiNAPA_DINSH
AccessioniPrimary (citable) accession number: A8LLY9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: December 4, 2007
Last modified: May 27, 2015
This is version 60 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

Complete proteome, Reference 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.