Naphthalene 1,2-dioxygenase subunit beta

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Reviewed, UniProtKB/Swiss-Prot P0A112 (NDOC_PSEPU)

Last modified March 3, 2009. Version 34. History...

Clusters with 100%, 90%, 50% identity |

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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:
    Naphthalene 1,2-dioxygenase subunit beta
    EC=1.14.12.12
Alternative name(s):
    Naphthalene 1,2-dioxygenase ISP beta

Gene names

Name:	ndoC
Synonyms:	nahAD

Encoded on

Plasmid pDTG1 Ref.2
Plasmid NAH7 Ref.3

Organism

Pseudomonas putida

Taxonomic identifier

303 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Pseudomonadales › Pseudomonadaceae › Pseudomonas

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Protein attributes

Sequence length	194 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

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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. The beta subunit may be responsible for the substrate specificity of the enzyme.
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; naphtalene degradation.
Subunit structure	The 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 hexamer of three large alpha subunits (ndoB) and three small beta subunits (ndoC).
Sequence similarities	Belongs to the bacterial ring-hydroxylating dioxygenase beta subunit family.

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Ontologies

Keywords
Biological process	Aromatic hydrocarbons catabolism
Ligand	NAD
Molecular function	Dioxygenase Oxidoreductase
Technical term	3D-structure Plasmid
Gene Ontology (GO)
Biological process	aromatic compound catabolic process Inferred from electronic annotation. Source: UniProtKB-KW oxidation reduction Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	naphthalene 1,2-dioxygenase activity Inferred from electronic annotation. Source: EC oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen 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
ndoB	P0A110	2	EBI-1029028,EBI-1029015

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 194

194

Naphthalene 1,2-dioxygenase subunit beta

PRO_0000085072

Natural variations

Natural variant

E → Q in strain: G7.

Natural variant

I → F in strain: G7.

Natural variant

S → A in strain: G7.

Natural variant

39 – 40

TQ → NR in strain: G7.

Natural variant

V → I in strain: G7.

Natural variant

109

G → S in strain: G7.

Natural variant

127

M → R in strain: G7.

Natural variant

130

N → D in strain: G7.

Natural variant

132

K → E in strain: G7.

Secondary structure

194

Helix Strand Turn

Details...

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Sequences

Sequence

Length

Mass (Da)

Tools

P0A112-1 [UniParc].

Last modified March 1, 2005. Version 1.
Checksum: 168D2E1535E66416
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FASTA

194

22,935

        10         20         30         40         50         60 
MMINIQEDKL VSAHDAEEIL RFFNCHDSAL QQEATTLLTQ EAHLLDIQAY RAWLEHCVGS 

        70         80         90        100        110        120 
EVQYQVISRE LRAASERRYK LNEAMNVYNE NFQQLKVRVE HQLDPQNWGN SPKLRFTRFI 

       130        140        150        160        170        180 
TNVQAAMDVN DKELLHIRSN VILHRARRGN QVDVFYAARE DKWKRGEGGV RKLVQRFVDY 

       190 
PERILQTHNL MVFL

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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: 3243438] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: 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: 8973308] [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: 8486285] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 17485 / DSM 50208 / Stanier 111 / JCM 6158 / Biotype A.
[4]	"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: 9634695] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.25 ANGSTROMS). Strain: NCIMB 9816-4.
+	Additional computationally mapped references.

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Cross-references

Sequence databases

M23914 Genomic DNA. Translation: AAB47592.1.
U49496 Genomic DNA. Translation: AAA92142.1.
M83949 Genomic DNA. Translation: AAA25903.1.

PIR

JN0645.
JS0072.

RefSeq

NP_863073.1.

3D structure databases

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1EG9	X-ray	1.60	B	1-194	[»]
1NDO	X-ray	2.25	B/D/F	1-194	[»]
1O7G	X-ray	1.70	B	1-194	[»]
1O7H	X-ray	2.20	B	1-194	[»]
1O7M	X-ray	1.75	B	1-194	[»]
1O7N	X-ray	1.40	B	1-194	[»]
1O7P	X-ray	1.95	B	1-194	[»]
1O7W	X-ray	1.90	B	1-194	[»]
1UUV	X-ray	1.65	B	1-194	[»]
1UUW	X-ray	2.30	B	1-194	[»]

ModBase

Search...

Protein-protein interaction databases

IntAct

P0A112. 1 interaction.

Genome annotation databases

GeneID

1343188.

Enzyme and pathway databases

BioCyc

MetaCyc:MON-12803.

BRENDA

1.14.12.12. 403.

Family and domain databases

InterPro

IPR000391. Rng_hydr_dOase-bsu.
[Graphical view]

Pfam

PF00866. Ring_hydroxyl_B. 1 hit.
[Graphical view]

ProtoNet

Search...

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Entry information

Entry name

NDOC_PSEPU

Accession

Primary (citable) accession number: P0A112
Secondary accession number(s): P23095, Q52125

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 1, 2005
Last sequence update:	March 1, 2005
Last modified:	March 3, 2009
This is version 34 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)

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Relevant documents

PATHWAY comments

Index of metabolic and biosynthesis pathways

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Natural variations

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Genome annotation databases

Enzyme and pathway databases

Family and domain databases

Entry information

Relevant documents