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Protein

Periplasmic nitrate reductase

Gene

napA

Organism
Vibrio fischeri (strain ATCC 700601 / ES114)
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 bindingi48 – 481Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi51 – 511Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi55 – 551Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi83 – 831Iron-sulfur (4Fe-4S)UniRule annotation

GO - Molecular functioni

  1. 4 iron, 4 sulfur cluster binding Source: UniProtKB-HAMAP
  2. electron carrier activity Source: UniProtKB-HAMAP
  3. iron ion binding Source: UniProtKB-HAMAP
  4. molybdenum ion binding Source: InterPro
  5. nitrate reductase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. Mo-molybdopterin cofactor biosynthetic process Source: UniProtKB-HAMAP
  2. nitrate assimilation Source: UniProtKB-HAMAP
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

BioCyciAFIS312309:GIWP-2007-MONOMER.
MetaCyc:MONOMER-13447.

Names & Taxonomyi

Protein namesi
Recommended name:
Periplasmic nitrate reductaseUniRule annotation (EC:1.7.99.4UniRule annotation)
Gene namesi
Name:napAUniRule annotation
Ordered Locus Names:VF_1905
OrganismiVibrio fischeri (strain ATCC 700601 / ES114)
Taxonomic identifieri312309 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeAliivibrio
ProteomesiUP000000537: Chromosome I

Subcellular locationi

Periplasm UniRule annotation

GO - Cellular componenti

  1. periplasmic space Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Periplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2929Tat-type signalUniRule annotationAdd
BLAST
Chaini30 – 829800Periplasmic nitrate reductasePRO_0000046010Add
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

STRINGi312309.VF_1905.

Structurei

3D structure databases

ProteinModelPortaliQ5E3J6.
SMRiQ5E3J6. Positions 41-827.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini41 – 97574Fe-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.
OMAiFTTDEMW.
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.

Q5E3J6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKMTRRAFVK ANAAASAAAV AGVTLPASAT NLIVSSDQTK IKWDKAPCRF
60 70 80 90 100
CGTGCSVLVG TQNGRVVATQ GDPEAPVNKG LNCIKGYFLS KIMYGKDRVQ
110 120 130 140 150
TPMLRMKDGQ YNKDGDFAPV SWDVALDTMA EKWKAALKKH GPTGVGMFGS
160 170 180 190 200
GQWTVMEGYA AVKLMKAGFR SNNIDPNARH CMASAVGAFM RTFGIDEPMG
210 220 230 240 250
CYDDFENADS FVLWGSNMAE MHPVLWTRIS DRRLSHPHVK VNVLSTYYHR
260 270 280 290 300
SFELADKGYI FEPQSDLAIA NFIANYIIQN NAVNWDFVNK HTNFKQATTD
310 320 330 340 350
IGYGLRDDDP LQMEAANPNS GAMSSISFEE YKKSVAPYTA QKASEMSGVS
360 370 380 390 400
EEDLITLAKQ YADPKTKVMS LWTMGMNQHT RGVWMNSLVY NIHLLTGKIA
410 420 430 440 450
TPGNSPFSLT GQPSACGTAR EVGTFSHRLP ADMVVANPKH RAISEKIWKL
460 470 480 490 500
PEGTLNGKPG AHAVVQDRML KDGKINAYWV MCNNNMQAGP NINTERLPGY
510 520 530 540 550
RNPENFIVCS DPYPTATAQA ADLILPTAMW VEKEGAYGNA ERRTQAWYQQ
560 570 580 590 600
VQAKGEAKSD LWQIMEFSKR FKVEEVWGEE LVAKAPEYRG KTMYDILFKN
610 620 630 640 650
GQVDAFPLSE AQELNDDAKA QGFYVQKGLF EEYASFGRGH GHDLAPYDTY
660 670 680 690 700
HTVRGLRWPV VDGKETLWRF KEGSDPYAKK GSDWDFYGKP DGKALIISAP
710 720 730 740 750
YEAPPEVPND EFDMWLCTGR VLEHWHTGTM TRRVPELYKA VPDALCYIHP
760 770 780 790 800
ADAKKRNLRR GDEVLISNKR GEVRVRVETR GRNRPPEGLV FVPFFDARIL
810 820
INKLILDATD PLSKQTDFKK CPVKITKIA
Length:829
Mass (Da):92,594
Last modified:March 15, 2005 - v1
Checksum:i6EAD417D6C0B0826
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000020 Genomic DNA. Translation: AAW86400.1.
RefSeqiWP_011262391.1. NC_006840.2.
YP_205288.1. NC_006840.2.

Genome annotation databases

EnsemblBacteriaiAAW86400; AAW86400; VF_1905.
GeneIDi3279209.
KEGGivfi:VF_1905.
PATRICi20114502. VBIVibFis127983_1932.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000020 Genomic DNA. Translation: AAW86400.1.
RefSeqiWP_011262391.1. NC_006840.2.
YP_205288.1. NC_006840.2.

3D structure databases

ProteinModelPortaliQ5E3J6.
SMRiQ5E3J6. Positions 41-827.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi312309.VF_1905.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAW86400; AAW86400; VF_1905.
GeneIDi3279209.
KEGGivfi:VF_1905.
PATRICi20114502. VBIVibFis127983_1932.

Phylogenomic databases

eggNOGiCOG0243.
HOGENOMiHOG000031441.
KOiK02567.
OMAiFTTDEMW.
OrthoDBiEOG6CVV7G.

Enzyme and pathway databases

BioCyciAFIS312309:GIWP-2007-MONOMER.
MetaCyc:MONOMER-13447.

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: ATCC 700601 / ES114.

Entry informationi

Entry nameiNAPA_VIBF1
AccessioniPrimary (citable) accession number: Q5E3J6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 7, 2006
Last sequence update: March 15, 2005
Last modified: February 4, 2015
This is version 71 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.