Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

P0A110 (NDOB_PSEPU) Reviewed, UniProtKB/Swiss-Prot

Last modified October 16, 2013. Version 60. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Naphthalene 1,2-dioxygenase subunit alpha

EC=1.14.12.12
Alternative name(s):
Naphthalene 1,2-dioxygenase ISP alpha
Gene names
Name:ndoB
Synonyms:nahA3, nahAC, ndoC2
Encoded onPlasmid pDTG1 Ref.2
Plasmid NAH7 Ref.3
Plasmid NPL1 Ref.4
OrganismPseudomonas putida (Arthrobacter siderocapsulatus)
Taxonomic identifier303 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas

Protein attributes

Sequence length449 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Component of the naphthalene dioxygenase (NDO) multicomponent enzyme system which catalyzes the incorporation of both atoms of molecular oxygen into naphthalene to form cis-naphthalene dihydrodiol.

Catalytic activity

Naphthalene + NADH + O2 = (1R,2S)-1,2-dihydronaphthalene-1,2-diol + NAD+.

Cofactor

Binds 1 2Fe-2S cluster Probable.

Binds 1 iron ion Probable.

Pathway

Aromatic compound metabolism; naphthalene degradation.

Subunit structure

Naphthalene dioxygenase (NDO) multicomponent enzyme system is composed of an electron transfer component and an iron sulfur protein (ISP). The electron transfer component is composed of ferredoxin reductase (NdoR) and ferredoxin (NdoA), and ISP is composed of a large alpha subunit (NdoB) and a small beta subunit (NdoC).

Sequence similarities

Belongs to the bacterial ring-hydroxylating dioxygenase alpha subunit family.

Contains 1 Rieske domain.

Binary interactions

With

Entry

#Exp.

IntAct

Notes

ndoCP0A1127EBI-1029015,EBI-1029028

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 449449Naphthalene 1,2-dioxygenase subunit alpha
PRO_0000085053

Regions

Domain39 – 13799Rieske

Sites

Metal binding811Iron-sulfur (2Fe-2S)
Metal binding831Iron-sulfur (2Fe-2S); via pros nitrogen
Metal binding1011Iron-sulfur (2Fe-2S)
Metal binding1041Iron-sulfur (2Fe-2S); via pros nitrogen
Metal binding2081Iron
Metal binding2131Iron
Metal binding3621Iron

Natural variations

Natural variant41N → K in strain: G7.
Natural variant121S → F in strain: ATCC 17484.
Natural variant151S → T in strain: G7.
Natural variant321K → R in strain: G7.
Natural variant501A → S in strain: G7.
Natural variant701N → S in strain: G7.
Natural variant90 – 912SV → NA in strain: G7.
Natural variant1221D → E in strain: G7.
Natural variant1731M → I in strain: G7.
Natural variant2251S → A in strain: G7.
Natural variant2251S → C in strain: BS202.
Natural variant2321A → V in strain: G7.
Natural variant2751A → S in strain: G7.
Natural variant3911E → K in strain: G7.
Natural variant4211Q → R in strain: ATCC 17484.
Natural variant4341H → D in strain: G7.

Secondary structure

................................................................................................. 449
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P0A110 [UniParc].

Last modified March 1, 2005. Version 1.
Checksum: 1FD2F42296B4F7A8

FASTA44949,608
        10         20         30         40         50         60 
MNYNNKILVS ESGLSQKHLI HGDEELFQHE LKTIFARNWL FLTHDSLIPA PGDYVTAKMG 

        70         80         90        100        110        120 
IDEVIVSRQN DGSIRAFLNV CRHRGKTLVS VEAGNAKGFV CSYHGWGFGS NGELQSVPFE 

       130        140        150        160        170        180 
KDLYGESLNK KCLGLKEVAR VESFHGFIYG CFDQEAPPLM DYLGDAAWYL EPMFKHSGGL 

       190        200        210        220        230        240 
ELVGPPGKVV IKANWKAPAE NFVGDAYHVG WTHASSLRSG ESIFSSLAGN AALPPEGAGL 

       250        260        270        280        290        300 
QMTSKYGSGM GVLWDGYSGV HSADLVPELM AFGGAKQERL NKEIGDVRAR IYRSHLNCTV 

       310        320        330        340        350        360 
FPNNSMLTCS GVFKVWNPID ANTTEVWTYA IVEKDMPEDL KRRLADSVQR TFGPAGFWES 

       370        380        390        400        410        420 
DDNDNMETAS QNGKKYQSRD SDLLSNLGFG EDVYGDAVYP GVVGKSAIGE TSYRGFYRAY 

       430        440 
QAHVSSSNWA EFEHASSTWH TELTKTTDR 

« Hide

References

[1]"Cloning, nucleotide sequence and characterization of genes encoding naphthalene dioxygenase of Pseudomonas putida strain NCIB9816."
Kurkela S., Lehvaeslaiho H., Palva E.T., Teeri T.H.
Gene 73:355-362(1988) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: DSM 8368 / NCIMB 9816.
[2]"Cloning and sequencing of the genes encoding 2-nitrotoluene dioxygenase from Pseudomonas sp. JS42."
Parales J.V., Kumar A., Parales R.E., Gibson D.T.
Gene 181:57-61(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: NCIMB 9816-4.
[3]"Sequences of genes encoding naphthalene dioxygenase in Pseudomonas putida strains G7 and NCIB 9816-4."
Simon M.J., Osslund T.D., Saunders R., Ensley B.D., Suggs S., Harcourt A.A., Suen W.-C., Cruden D.L., Gibson D.T., Zylstra G.J.
Gene 127:31-37(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: ATCC 17485 / DSM 50208 / JCM 6158 / NCIMB 12092 / Stanier 111 / Biotype A.
[4]"Nucleotide sequences of genes encoding an upper pathway of naphthalene metabolism of NPL1 plasmid from Pseudomonas putida strain BS202."
Bezborodnikov S.G., Boronin A.M., Tiedje J.M.
Submitted (JUL-1997) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: BS202.
[5]"Naphthalene dioxygenase genes from Pseudomonas putida."
Hamann C.
Submitted (JUN-1997) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: ATCC 17484 / DSM 50222 / NCIMB 10535 / Stanier 110 / Biotype B.
[6]"Structure of an aromatic-ring-hydroxylating dioxygenase-naphthalene 1,2-dioxygenase."
Kauppi B., Lee K., Carredano E., Parales R.E., Gibson D.T., Eklund H., Ramaswamy S.
Structure 6:571-586(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.25 ANGSTROMS).
Strain: NCIMB 9816-4.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
M23914 Genomic DNA. Translation: AAB47591.1.
U49496 Genomic DNA. Translation: AAA92141.1.
M83949 Genomic DNA. Translation: AAA25902.1.
AF010471 Genomic DNA. Translation: AAB62707.1.
AF004284 Genomic DNA. Translation: AAB61373.1.
PIRJN0644.
JS0071.
RefSeqNP_863072.1. NC_004999.1.
YP_534822.1. NC_007926.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1EG9X-ray1.60A1-449[»]
1NDOX-ray2.25A/C/E1-449[»]
1O7GX-ray1.70A1-449[»]
1O7HX-ray2.20A1-449[»]
1O7MX-ray1.75A1-449[»]
1O7NX-ray1.40A1-449[»]
1O7PX-ray1.95A1-449[»]
1O7WX-ray1.90A1-449[»]
1UUVX-ray1.65A1-449[»]
1UUWX-ray2.30A1-449[»]
ProteinModelPortalP0A110.
SMRP0A110. Positions 1-447.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

IntActP0A110. 1 interaction.
MINTMINT-257428.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID1343187.
3974209.

Phylogenomic databases

ProtClustDBCLSK644467.

Enzyme and pathway databases

BioCycMetaCyc:MONOMER-12802.
UniPathwayUPA00082.

Family and domain databases

Gene3D2.102.10.10. 1 hit.
3.90.380.10. 1 hit.
InterProIPR017941. Rieske_2Fe-2S.
IPR015881. Ring-hydroxy_dOase_2Fe2S_BS.
IPR015879. Ring_hydroxy_dOase_asu_C_dom.
IPR001663. Rng_hydr_dOase-A.
[Graphical view]
PfamPF00355. Rieske. 1 hit.
PF00848. Ring_hydroxyl_A. 1 hit.
[Graphical view]
PRINTSPR00090. RNGDIOXGNASE.
SUPFAMSSF50022. SSF50022. 1 hit.
PROSITEPS51296. RIESKE. 1 hit.
PS00570. RING_HYDROXYL_ALPHA. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP0A110.

Entry information

Entry nameNDOB_PSEPU
AccessionPrimary (citable) accession number: P0A110
Secondary accession number(s): O07830 expand/collapse secondary AC list , O33461, P23094, Q52124
Entry history
Integrated into UniProtKB/Swiss-Prot: March 1, 2005
Last sequence update: March 1, 2005
Last modified: October 16, 2013
This is version 60 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

PATHWAY comments

Index of metabolic and biosynthesis pathways