4KNF | pdb_00004knf

Crystal structure of a blue-light absorbing proteorhodopsin double-mutant D97N/Q105L 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: OPM
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	d4knfe1	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	d4knfe2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
D	d4knfd1	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	d4knfd2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
C	d4knfc1	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	d4knfc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
B	d4knfb1	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	d4knfb2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(gamma proteobacterium 'Hot 75m4 ) [TaxId: 245185 ],	SCOPe (2.08)
A	d4knfa1	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	d4knfa2	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	SCOP2B Superfamily	G protein-coupled receptor-like	8071326	3000473	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)
E		e4knfE1	A: all-alpha NTP pyrophosphatases	X: all-alpha NTP pyrophosphatases	H: MazG-related	T: VCPO_2nd	F:	ECOD (20:10:01)
D		e4knfD1	A: all-alpha NTP pyrophosphatases	X: all-alpha NTP pyrophosphatases	H: MazG-related	T: VCPO_2nd	F:	ECOD (20:10:01)
C		e4knfC1	A: all-alpha NTP pyrophosphatases	X: all-alpha NTP pyrophosphatases	H: MazG-related	T: VCPO_2nd	F:	ECOD (20:10:01)
B		e4knfB2	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: CoV_NSP4_C	F:	ECOD (20:10:01)
A		e4knfA1	A: all-alpha NTP pyrophosphatases	X: all-alpha NTP pyrophosphatases	H: MazG-related	T: VCPO_2nd	F:	ECOD (20:10:01)

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: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D, E	OPM	Transmembrane	Alpha-helical polytopic	Rhodopsin-like receptors and pumps	Microbial and algal rhodopsins

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.