5JJF

Structure of the SRII/HtrII Complex in I212121 space group ("U" shape) - M state

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5jjfa_	Membrane and cell surface proteins and peptides	Class A G protein-coupled receptor (GPCR)-like	Class A G protein-coupled receptor (GPCR)-like	Bacteriorhodopsin-like	Sensory rhodopsin II	Natronobacterium pharaonis (Natronomonas pharaonis ) [TaxId: 2257 ],	SCOPe (2.08)
B	d5jjfb_	Membrane and cell surface proteins and peptides	Transmembrane helix hairpin	Htr2 transmembrane domain-like	Htr2 transmembrane domain-like	Sensory rhodopsin II transducer, Htr2	Natronobacterium pharaonis (Natronomonas pharaonis ) [TaxId: 2257 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	G protein-coupled receptor-like	8042369	3000473	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Htr2 transmembrane domain-like	8042370	3000967	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Bac_rhodopsin	e5jjfA1	A: alpha bundles	X: Family A G protein-coupled receptor-like (From Topology)	H: Family A G protein-coupled receptor-like (From Topology)	T: Family A G protein-coupled receptor-like	F: Bac_rhodopsin	ECOD (1.6)
B	EUF08777	e5jjfB1	A: extended segments	X: Sensor proteins transmembrane domains	H: Htr2 transmembrane domain-like (From Topology)	T: Htr2 transmembrane domain-like	F: EUF08777	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.1070.10	Mainly Alpha	Up-down Bundle	Rhopdopsin 7-helix transmembrane proteins	Rhodopsin 7-helix transmembrane proteins	CATH (4.3.0)
B	1.10.287.470	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01036	Bacteriorhodopsin-like protein (Bac_rhodopsin)	Bacteriorhodopsin-like protein	The bacterial opsins are retinal-binding proteins that provide light- dependent ion transport and sensory functions to a family of halophilic bacteria [2,3]. They are integral membrane proteins believed to contain seven transmembrane (TM) domains, th ...	The bacterial opsins are retinal-binding proteins that provide light- dependent ion transport and sensory functions to a family of halophilic bacteria [2,3]. They are integral membrane proteins believed to contain seven transmembrane (TM) domains, the last of which contains the attachment point for retinal (a conserved lysine). This family also includes distantly related proteins that do not contain the retinal binding lysine and so cannot function as opsins. Some fungal examples are: Swiss:O74870, Swiss:P25619, Swiss:P38079, Swiss:Q12117.	Domain
B	PF17909	Htr2 transmembrane domain (Htr2)	Htr2 transmembrane domain	Archaebacterial photoreceptors mediate phototaxis by regulating cell motility through two-component signaling cascades like those found in chemotaxis signaling chains of enteric bacteria. The photoreceptor sensory rhodopsin II from N. pharaonis (NpSR ...	Archaebacterial photoreceptors mediate phototaxis by regulating cell motility through two-component signaling cascades like those found in chemotaxis signaling chains of enteric bacteria. The photoreceptor sensory rhodopsin II from N. pharaonis (NpSRII) in complex with its cognate transducer NpHtrII serves as a system for transmembrane signal transfer. This entry is for the transmembrane domain of the transducer HtrII. Studies suggest that conformation changes of the NpSRII/NpHtrII complex may be crucial for the mechanism of signal propagation spanning the membrane domain and feeding into the HAMP domain [1]. Furthermore, HtrII in H. salinarum not only transmits the signal from the photoreceptor SRII but also operates as a chemoreceptor [2].	Domain
B	PF00672	HAMP domain (HAMP)	HAMP domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Sensory rhodopsin-2	passive transmembrane transporter activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity molecular transducer activity photoreceptor activity signaling receptor activity	phototransduction cellular response to stimulus detection of light stimulus response to light stimulus detection of external stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation response to external stimulus detection of abiotic stimulus cell communication detection of stimulus phototransduction cellular response to stimulus detection of light stimulus response to light stimulus detection of external stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation response to external stimulus detection of abiotic stimulus cell communication detection of stimulus cellular process response to abiotic stimulus response to radiation signal transduction	cell periphery plasma membrane membrane cellular anatomical entity
B	Sensory rhodopsin II transducer	molecular transducer activity photoreceptor activity signaling receptor activity identical protein binding protein binding binding transmembrane signaling receptor activity	chemotaxis response to stimulus taxis response to chemical response to external stimulus locomotion cellular response to stimulus regulation of biological process regulation of cellular process signaling biological regulation cellular process signal transduction cell communication	cell periphery plasma membrane membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR018229	Rhodopsin, retinal binding site	Binding Site
A	IPR001425	Archaeal/bacterial/fungal rhodopsins	Family
B	IPR004090	Chemotaxis methyl-accepting receptor	Family
B	IPR040913	Htr2, transmembrane domain	Domain
B	IPR003660	HAMP domain	Domain
B	IPR004089	Methyl-accepting chemotaxis protein (MCP) signalling domain	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.