P0A113 (NDOC_PSEU8) Reviewed, UniProtKB/Swiss-Prot

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:

doxD

Encoded on

Plasmid

Organism

Pseudomonas sp. (strain C18)

Taxonomic identifier

69011 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria

Protein attributes

Sequence length	194 AA.
Sequence status	Complete.
Protein existence	Evidence 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. 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 By similarity. Binds 1 iron ion By similarity.
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 and ferredoxin (doxA), and ISP is composed of a large alpha subunit (doxB) and a small beta subunit (doxD) Probable.
Sequence similarities	Belongs to the bacterial ring-hydroxylating dioxygenase beta subunit family.

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
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
Complete GO annotation...

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_0000085073

Secondary structure

1

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194

Helix Strand Turn

Details...

Turn

5 – 7

3

Helix

13 – 24

12

Helix

28 – 46

19

Helix

50 – 57

8

Beta strand

58 – 69

12

Beta strand

84 – 90

7

Helix

92 – 103

12

Helix

108 – 110

3

Beta strand

115 – 127

13

Beta strand

134 – 147

14

Turn

148 – 150

3

Beta strand

151 – 165

15

Helix

167 – 169

3

Beta strand

171 – 179

9

Beta strand

183 – 185

3

Sequences

	Sequence		Length	Mass (Da)
	P0A113 [UniParc]. Last modified March 1, 2005. Version 1. Checksum: 168D2E1535E66416	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

References

[1]	"Metabolism of dibenzothiophene and naphthalene in Pseudomonas strains: complete DNA sequence of an upper naphthalene catabolic pathway." Denome S.A., Stanley D.C., Olson E.S., Young K.D. J. Bacteriol. 175:6890-6901(1993) [PubMed: 8226631] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

M60405 Genomic DNA. Translation: AAA16127.1.

PIR

S27634.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2HMJ	X-ray	1.50	B	1-194	[»]
2HMK	X-ray	1.65	B	1-194	[»]
2HML	X-ray	1.80	B	1-194	[»]
2HMM	X-ray	1.60	B	1-194	[»]
2HMN	X-ray	1.70	B	1-194	[»]
2HMO	X-ray	1.60	B	1-194	[»]

ProteinModelPortal

P0A113.

SMR

P0A113. Positions 2-194.

ModBase

Search...

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Family and domain databases

InterPro

IPR000391. Rng_hydr_dOase-bsu.
[Graphical view]

Pfam

PF00866. Ring_hydroxyl_B. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

NDOC_PSEU8

Accession

Primary (citable) accession number: P0A113
Secondary accession number(s): P23095, Q52125

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 1, 2005
Last sequence update:	March 1, 2005
Last modified:	June 28, 2011
This is version 34 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program