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Protein

Periplasmic nitrate reductase

Gene

napA

Organism
Leptothrix cholodnii (strain ATCC 51168 / LMG 8142 / SP-6) (Leptothrix discophora (strain SP-6))
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 bindingi51 – 511Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi54 – 541Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi58 – 581Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi86 – 861Iron-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

BioCyciLCHO395495:GHYL-1361-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:Lcho_1343
OrganismiLeptothrix cholodnii (strain ATCC 51168 / LMG 8142 / SP-6) (Leptothrix discophora (strain SP-6))
Taxonomic identifieri395495 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesLeptothrix
ProteomesiUP000001693 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 – 2929Tat-type signalUniRule annotationAdd
BLAST
Chaini30 – 851822Periplasmic nitrate reductasePRO_5000331867Add
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

STRINGi395495.Lcho_1343.

Structurei

3D structure databases

ProteinModelPortaliB1Y6A6.
SMRiB1Y6A6. Positions 43-848.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini44 – 100574Fe-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.
IPR019546. TAT_signal_bac_arc.
[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.
TIGR01409. TAT_signal_seq. 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.

B1Y6A6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQSNRRDFLK AQALAASAAA AGIPIVVEAA NGTAAPKTAA DVAVRWDKAP
60 70 80 90 100
CRFCGTGCAV MVGVQEGKVV ATQGDPEAPV NRGLNCIKGY FLSKIMYGRD
110 120 130 140 150
RLQTPLLRKK NGVYDKEGDF VPVSWDEAFD IMAAKWKETL KTDGPTGIGM
160 170 180 190 200
FGSGQWTVWE GYAAAKLWKA GFRSNNLDPN ARHCMASAVT GFMRTFGIDE
210 220 230 240 250
PMGCYDDIEQ SDAFVLWGSN MAEMHPILWS RITDRRLSNP HVKVAVLSTY
260 270 280 290 300
EHRSFDLADQ AMIFKPQTDL AILNYIANYI ITNKKVNTEF VKKNINFKKG
310 320 330 340 350
ATDIGYGLRP GHALEKDATS NGYPGADGKP KGNPNDSTPI SFDEYAKFVS
360 370 380 390 400
EYTAEKVSEI SGVTVEQLKA LAELYADPKV KVVSYWTMGF NQHTRGTWAN
410 420 430 440 450
NMVYNIHLLT GKISQPGNGP FSLTGQPSAC GTAREVGTFA HRLPADMVVT
460 470 480 490 500
NPEHRHHAEE IWGLPEGTIP DKIGLHAVAQ SRALKDGKLK CYWVTTNNNM
510 520 530 540 550
QAGPNINGEI LPGWRNPKTF IVVSDPYPTA SAMAADLVLP AAMWVEKEGA
560 570 580 590 600
FGNAERRTQV WRQQVSAPGE ARSDLWQMME FSKRFKIEDV WTAELIAKKP
610 620 630 640 650
AVKGKTLFDV LFRNGKVDKY PLADLTKVNA KYIKDYTNDE SKAYGFYVQK
660 670 680 690 700
GLFEEYAEFG RGHGHDLAPF DVYHEVRGLR WPVVDGKETL WRFREGYDPY
710 720 730 740 750
VKKGEGVKFY GHKDGRANIF ALPYQPAAES PDKEYDLWLC TGRVLEHWHT
760 770 780 790 800
GTMTRRVPEL HRAVPEAQLF MHPDDAKARG LQRGMKVKIA SRRGEILLAV
810 820 830 840 850
ETKGRNKVPR GLVFVPFFDE GKLINKLTLD ATCPISKETD FKKCAVKVVR

A
Length:851
Mass (Da):94,789
Last modified:May 20, 2008 - v1
Checksum:i30900AA43A5B5A76
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001013 Genomic DNA. Translation: ACB33611.1.
RefSeqiWP_012346373.1. NC_010524.1.
YP_001790376.1. NC_010524.1.

Genome annotation databases

EnsemblBacteriaiACB33611; ACB33611; Lcho_1343.
KEGGilch:Lcho_1343.
PATRICi22392985. VBILepCho83238_1345.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001013 Genomic DNA. Translation: ACB33611.1.
RefSeqiWP_012346373.1. NC_010524.1.
YP_001790376.1. NC_010524.1.

3D structure databases

ProteinModelPortaliB1Y6A6.
SMRiB1Y6A6. Positions 43-848.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi395495.Lcho_1343.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACB33611; ACB33611; Lcho_1343.
KEGGilch:Lcho_1343.
PATRICi22392985. VBILepCho83238_1345.

Phylogenomic databases

eggNOGiCOG0243.
HOGENOMiHOG000031441.
KOiK02567.
OMAiCSERRYS.
OrthoDBiEOG6CVV7G.

Enzyme and pathway databases

BioCyciLCHO395495:GHYL-1361-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.
IPR019546. TAT_signal_bac_arc.
[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.
TIGR01409. TAT_signal_seq. 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 51168 / LMG 8142 / SP-6.

Entry informationi

Entry nameiNAPA_LEPCP
AccessioniPrimary (citable) accession number: B1Y6A6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: May 20, 2008
Last modified: April 29, 2015
This is version 57 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.