P42196 (BACS2_NATPH) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Sensory rhodopsin-2

Alternative name(s):
Sensory rhodopsin II
Short name=SR-II

Gene names

Name:	sop2
Synonyms:	sopII

Organism

Natronomonas pharaonis (Natronobacterium pharaonis)

Taxonomic identifier

2257 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Euryarchaeota › Halobacteria › Halobacteriales › Halobacteriaceae › Natronomonas

Protein attributes

Sequence length	239 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Involved in the control of phototaxis. Seems to activate a methyl-accepting protein (HTR-II). Photoreceptor for blue light.
Subunit structure	Homodimer.
Subcellular location	Cell membrane; Multi-pass membrane protein.
Sequence similarities	Belongs to the archaeal/bacterial/fungal opsin family.

Ontologies

Keywords
Biological process	Sensory transduction
Cellular component	Cell membrane Membrane
Domain	Transmembrane Transmembrane helix
Ligand	Chromophore
Molecular function	Photoreceptor protein Receptor Retinal protein
Technical term	3D-structure
Gene Ontology (GO)
Biological_process	phototransduction Inferred from electronic annotation. Source: UniProtKB-KW protein-chromophore linkage Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW plasma membrane Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	ion channel activity Inferred from electronic annotation. Source: InterPro photoreceptor activity Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
htr2	P42259	1	EBI-1034509,EBI-1034515

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 239

239

Sensory rhodopsin-2

PRO_0000196282

Regions

Topological domain

1 – 3

3

Extracellular

Transmembrane

4 – 25

22

Helical; Name=Helix A

Topological domain

26 – 33

8

Cytoplasmic

Transmembrane

34 – 55

22

Helical; Name=Helix B

Topological domain

56 – 69

14

Extracellular

Transmembrane

70 – 91

22

Helical; Name=Helix C

Topological domain

92 – 94

3

Cytoplasmic

Transmembrane

95 – 117

23

Helical; Name=Helix D

Topological domain

118 – 121

4

Extracellular

Transmembrane

122 – 149

28

Helical; Name=Helix E

Topological domain

150 – 153

4

Cytoplasmic

Transmembrane

154 – 181

28

Helical; Name=Helix F

Topological domain

182 – 189

8

Extracellular

Transmembrane

190 – 222

33

Helical; Name=Helix G

Topological domain

223 – 239

17

Cytoplasmic

Amino acid modifications

Modified residue

205

1

N6-(retinylidene)lysine

Secondary structure

1

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.

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239

Helix Strand Turn

Details...

Helix

2 – 26

25

Turn

31 – 33

3

Helix

34 – 55

22

Turn

56 – 59

4

Beta strand

60 – 63

4

Beta strand

66 – 69

4

Helix

70 – 91

22

Helix

95 – 117

23

Helix

123 – 142

20

Helix

144 – 149

6

Helix

154 – 171

18

Helix

173 – 180

8

Turn

182 – 185

4

Helix

190 – 218

29

Sequences

	Sequence		Length	Mass (Da)
	P42196 [UniParc]. Last modified November 1, 1995. Version 1. Checksum: C0E93EAF341B6B19	FASTA	239	25,355
	10 20 30 40 50 60 MVGLTTLFWL GAIGMLVGTL AFAWAGRDAG SGERRYYVTL VGISGIAAVA YVVMALGVGW 70 80 90 100 110 120 VPVAERTVFA PRYIDWILTT PLIVYFLGLL AGLDSREFGI VITLNTVVML AGFAGAMVPG 130 140 150 160 170 180 IERYALFGMG AVAFLGLVYY LVGPMTESAS QRSSGIKSLY VRLRNLTVIL WAIYPFIWLL 190 200 210 220 230 GPPGVALLTP TVDVALIVYL DLVTKVGFGF IALDAAATLR AEHGESLAGV DTDAPAVAD

References

[1]	"The primary structure of sensory rhodopsin II: a member of an additional retinal protein subgroup is coexpressed with its transducer, the halobacterial transducer of rhodopsin II." Seidel R., Scharf B., Gautel M., Kleine K., Oesterhelt D., Engelhard M. Proc. Natl. Acad. Sci. U.S.A. 92:3036-3040(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: SP-1 / 28.
[2]	"Crystal structure of sensory rhodopsin II at 2.4 Angstroms: insights into color tuning and transducer interaction." Luecke H., Schobert B., Lanyi J.K., Spudich E.N., Spudich J.L. Science 293:1499-1503(2001) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF 1-217.
[3]	"Molecular basis of transmembrane signalling by sensory rhodopsin II-transducer complex." Gordeliy V.I., Labahn J., Moukhametzianov R., Efremov R., Granzin J., Schlesinger R., Bueldt G., Savopol T., Scheidig A.J., Klare J.P., Engelhard M. Nature 419:484-487(2002) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS) OF 1-225.
[4]	"X-ray structure of sensory rhodopsin II at 2.1-A resolution." Royant A., Nollert P., Edman K., Neutze R., Landau E.M., Pebay-Peyroula E., Navarro J. Proc. Natl. Acad. Sci. U.S.A. 98:10131-10136(2001) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS) OF 2-219.
[5]	"Early structural rearrangements in the photocycle of an integral membrane sensory receptor." Edman K., Royant A., Nollert P., Maxwell C.A., Pebay-Peyroula E., Navarro J., Neutze R., Landau E.M. Structure 10:473-482(2002) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.27 ANGSTROMS) OF 2-219.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

Z35086 Genomic DNA. Translation: CAA84469.1.

PIR

S55300.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1GU8	X-ray	2.27	A	1-239	[»]
1GUE	X-ray	2.27	A	1-239	[»]
1H2S	X-ray	1.93	A	1-225	[»]
1H68	X-ray	2.10	A	1-239	[»]
1JGJ	X-ray	2.40	A	1-217	[»]
2F93	X-ray	2.00	A	2-239	[»]
2F95	X-ray	2.20	A	2-239	[»]
3QAP	X-ray	1.90	A	1-239	[»]
3QDC	X-ray	2.50	A	1-239	[»]

ProteinModelPortal

P42196.

SMR

P42196. Positions 1-225.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-35282N.

IntAct

P42196. 1 interaction.

MINT

MINT-248654.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Family and domain databases

InterPro

IPR001425. Rhodopsin_arc/bac/fun.
IPR018229. Rhodopsin_retinal_BS.
[Graphical view]

Pfam

PF01036. Bac_rhodopsin. 1 hit.
[Graphical view]

PRINTS

PR00251. BACTRLOPSIN.

SMART

SM01021. Bac_rhodopsin. 1 hit.
[Graphical view]

PROSITE

PS00950. BACTERIAL_OPSIN_1. 1 hit.
PS00327. BACTERIAL_OPSIN_RET. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P42196.

Entry information

Entry name

BACS2_NATPH

Accession

Primary (citable) accession number: P42196

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1995
Last sequence update:	November 1, 1995
Last modified:	April 3, 2013
This is version 83 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program