Reviewed, UniProtKB/Swiss-Prot O58316 (NIKR_PYRHO)

Names and origin

Protein names

Recommended name:
    Putative nickel-responsive regulator

Gene names

Ordered Locus Names:

PH0601

Organism

Pyrococcus horikoshii [Complete proteome] [HAMAP]

Taxonomic identifier

53953 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus

Protein attributes

Sequence length	138 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Transcriptional regulator Potential.
Cofactor	Binds 1 nickel ion per subunit By similarity.
Sequence similarities	Belongs to the transcriptional regulatory copG/nikR family.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Ligand	DNA-binding Metal-binding Nickel
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: HAMAP transcription Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	nickel ion binding Inferred from electronic annotation. Source: HAMAP transcription factor activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 138

138

Putative nickel-responsive regulator HAMAP MF_00476

PRO_0000139312

Sites

Metal binding

78

1

Nickel By similarity

Metal binding

89

1

Nickel By similarity

Metal binding

91

1

Nickel By similarity

Metal binding

97

1

Nickel By similarity

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

138

Helix Strand Turn

Details...

Beta strand

3 – 11

9

Helix

12 – 25

14

Helix

30 – 45

16

Helix

46 – 48

3

Beta strand

53 – 63

11

Helix

69 – 79

11

Turn

80 – 83

4

Beta strand

84 – 91

8

Beta strand

93 – 106

14

Helix

107 – 119

13

Beta strand

123 – 133

11

Sequences

	Sequence		Length	Mass (Da)
	O58316-1 [UniParc]. Last modified August 1, 1998. Version 1. Checksum: A4B8715636C019FE	FASTA	138	15,806
	10 20 30 40 50 60 MELIRFSISI PSKLLEKFDQ IIEEIGYENR SEAIRDLIRD FIIRHEWEVG NEEVAGTITI 70 80 90 100 110 120 VYNHDEGDVV KALLDLQHEY LDEIISSLHV HMDEHNCLEV IVVKGEAKKI KMIADKLLSL 130 KGVKHGKLVM TSTGKELV

References

[1]

"Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3." Kawarabayasi Y., Sawada M., Horikawa H., Haikawa Y., Hino Y., Yamamoto S., Sekine M., Baba S., Kosugi H., Hosoyama A., Nagai Y., Sakai M., Ogura K., Otsuka R., Nakazawa H., Takamiya M., Ohfuku Y., Funahashi T. , Tanaka T., Kudoh Y., Yamazaki J., Kushida N., Oguchi A., Aoki K., Yoshizawa T., Nakamura Y., Robb F.T., Horikoshi K., Masuchi Y., Shizuya H., Kikuchi H. DNA Res. 5:55-76(1998) [PubMed: 9679194] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: OT3.

+

Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

BA000001 Genomic DNA. Translation: BAA29690.1.

PIR

E71175.

RefSeq

NP_142565.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2BJ1	X-ray	3.00	A/B	1-138	[»]
2BJ3	X-ray	2.20	A/B/C/D	1-138	[»]
2BJ7	X-ray	2.10	A/B	1-138	[»]
2BJ8	X-ray	2.10	A/B	1-138	[»]
2BJ9	X-ray	3.00	A/B	1-138	[»]

ModBase

Search...

Genome annotation databases

GeneID

1442936.

GenomeReviews

Gene locus PH0601 in contig BA000001_GR.

KEGG

pho:PH0601.

NMPDR

fig|70601.1.peg.589.

Organism-specific databases

CMR

Search...

Phylogenomic databases

HOGENOM

O58316.

OMA

DEHNCLE.

Family and domain databases

HAMAP

MF_00476.
[Tree]

InterPro

IPR013321. Arc_rbn_hlx_hlx.
IPR002145. CopG_DNA_bd.
IPR014864. TF_NikR_Ni-bd_C.
[Graphical view]

Gene3D

G3DSA:1.10.1220.10. Arc_rbn_hlx_hlx. 1 hit.
G3DSA:3.30.70.1150. NikR_bd_C. 1 hit.

Pfam

PF08753. NikR_C. 1 hit.
PF01402. RHH_1. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

NIKR_PYRHO

Accession

Primary (citable) accession number: O58316

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 2, 2001
Last sequence update:	August 1, 1998
Last modified:	November 3, 2009
This is version 58 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)