4KLY | pdb_00004kly

Crystal structure of a blue-light absorbing proteorhodopsin mutant D97N from HOT75

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
E	d4klye1	Membrane and cell surface proteins and peptides	Class A G protein-coupled receptor (GPCR)-like	Class A G protein-coupled receptor (GPCR)-like	automated matches	automated matches	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
E	d4klye2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
D	d4klyd1	Membrane and cell surface proteins and peptides	Class A G protein-coupled receptor (GPCR)-like	Class A G protein-coupled receptor (GPCR)-like	automated matches	automated matches	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
D	d4klyd2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
C	d4klyc1	Membrane and cell surface proteins and peptides	Class A G protein-coupled receptor (GPCR)-like	Class A G protein-coupled receptor (GPCR)-like	automated matches	automated matches	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
C	d4klyc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
B	d4klyb1	Membrane and cell surface proteins and peptides	Class A G protein-coupled receptor (GPCR)-like	Class A G protein-coupled receptor (GPCR)-like	automated matches	automated matches	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
B	d4klyb2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
A	d4klya1	Membrane and cell surface proteins and peptides	Class A G protein-coupled receptor (GPCR)-like	Class A G protein-coupled receptor (GPCR)-like	automated matches	automated matches	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
A	d4klya2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E	SCOP2B Superfamily	G protein-coupled receptor-like	8071326	3000473	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	G protein-coupled receptor-like	8071326	3000473	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	G protein-coupled receptor-like	8071326	3000473	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	G protein-coupled receptor-like	8071326	3000473	SCOP2B (2022-06-29)
A	SCOP2 Family	Bacteriorhodopsin-like	8071325	4001859	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	G protein-coupled receptor-like	8071326	3000473	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E	VCPO_2nd	e4klyE1	A: alpha bundles	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (develop294)
D	Tubulin	e4klyD2	A: alpha bundles	X: POZ domain	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Tubulin	ECOD (develop294)
C	VCPO_2nd	e4klyC1	A: alpha bundles	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (develop294)
B	Bac_rhodopsin	e4klyB1	A: alpha bundles	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: Bac_rhodopsin	ECOD (develop294)
A	VCPO_2nd	e4klyA1	A: alpha bundles	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	1.20.1070.10	Mainly Alpha	Up-down Bundle	Rhopdopsin 7-helix transmembrane proteins	Rhodopsin 7-helix transmembrane proteins	CATH (4.3.0)
D	1.20.1070.10	Mainly Alpha	Up-down Bundle	Rhopdopsin 7-helix transmembrane proteins	Rhodopsin 7-helix transmembrane proteins	CATH (4.3.0)
C	1.20.1070.10	Mainly Alpha	Up-down Bundle	Rhopdopsin 7-helix transmembrane proteins	Rhodopsin 7-helix transmembrane proteins	CATH (4.3.0)
B	1.20.1070.10	Mainly Alpha	Up-down Bundle	Rhopdopsin 7-helix transmembrane proteins	Rhodopsin 7-helix transmembrane proteins	CATH (4.3.0)
A	1.20.1070.10	Mainly Alpha	Up-down Bundle	Rhopdopsin 7-helix transmembrane proteins	Rhodopsin 7-helix transmembrane proteins	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E	Blue-light absorbing proteorhodopsin	passive transmembrane transporter activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity light-activated monoatomic ion channel activity transmembrane transporter activity molecular transducer activity photoreceptor activity signaling receptor activity	monoatomic cation transmembrane transport transmembrane transport localization transport proton transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport cellular process monoatomic cation transport establishment of localization phototransduction cellular response to stimulus detection of light stimulus response to light stimulus monoatomic cation transmembrane transport transmembrane transport localization transport proton transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport cellular process monoatomic cation transport establishment of localization 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 response to abiotic stimulus response to radiation signal transduction	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR017402	Proteorhodopsin	Family
A, B, C, D, E	IPR018229	Rhodopsin, retinal binding site	Binding Site
A, B, C, D, E	IPR001425	Archaeal/bacterial/fungal rhodopsins	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D, E	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D, E	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Bacterial, Algal, Viral, and Unusual Rhodopsins	Proteorhodopsin (blue-light absorbing); HOT75BPR, D97N mutant

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.