4YV9

X-ray crystal structure of Streptococcus dysgalactiae SHP pheromone receptor Rgg2

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	HTH_3_2	e4yv9A2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: HTH_3_2	ECOD (1.6)
A	RGG_Cterm	e4yv9A1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: RGG_Cterm	ECOD (1.6)
D	HTH_3_2	e4yv9D1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: HTH_3_2	ECOD (1.6)
D	RGG_Cterm	e4yv9D2	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: RGG_Cterm	ECOD (1.6)
B	HTH_3_2	e4yv9B1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: HTH_3_2	ECOD (1.6)
B	RGG_Cterm	e4yv9B2	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: RGG_Cterm	ECOD (1.6)
C	HTH_3_2	e4yv9C2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: HTH_3_2	ECOD (1.6)
C	RGG_Cterm	e4yv9C1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: RGG_Cterm	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF01381	Helix-turn-helix (HTH_3)	Helix-turn-helix	This large family of DNA binding helix-turn helix proteins includes Cro Swiss:P03036 and CI Swiss:P03034. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be ...	This large family of DNA binding helix-turn helix proteins includes Cro Swiss:P03036 and CI Swiss:P03034. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteristic of the whole family [1].	Domain
A, B, C, D	PF21259	HTH-type transcriptional regulator Rgg, C-terminal domain (Rgg_C)	HTH-type transcriptional regulator Rgg, C-terminal domain	This domain is found at the C-terminal end of HTH-type transcriptional regulator Rgg from Streptococcus gordonii, and similar proteins predominantly found in Firmicutes. Rgg is a peptide pheromone receptor that directly binds pheromones transported t ...	This domain is found at the C-terminal end of HTH-type transcriptional regulator Rgg from Streptococcus gordonii, and similar proteins predominantly found in Firmicutes. Rgg is a peptide pheromone receptor that directly binds pheromones transported to the cytosol. The large C-terminal repeat domain contains five HTH folds and a capping helix that form a right-handed superhelical structure, resembling a TPR domain superhelix [1-5]. This domain is found associated with the N-terminal Pfam:PF01381.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Transcriptional regulator	DNA binding binding organic cyclic compound binding nucleic acid binding	-	-
E, F, G, H	Cyclosporin A	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR053163	HTH-type transcriptional regulator Rgg-like	Family
A, B, C, D	IPR001387	Cro/C1-type helix-turn-helix domain	Domain
A, B, C, D	IPR010057	HTH-type transcriptional regulator Rgg, C-terminal domain	Domain
A, B, C, D	IPR010982	Lambda repressor-like, DNA-binding domain superfamily	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C, D	MSE	Parent Component: MET
E, F, G, H	ABA	Parent Component: ALA RESID: AA0253 , AA0409 PSI-MOD : S-(2-aminovinyl)-3-methyl-D-cysteine MOD:00258 , L-2-aminobutanoic acid (Glu) MOD:00819
E, F, G, H	BMT	Parent Component: THR RESID: AA0253 , AA0409
E, F, G, H	DAL	RESID: AA0253 , AA0409 , AA0111 , AA0191 PSI-MOD : S-(2-aminovinyl)-3-methyl-D-cysteine MOD:00258 , L-2-aminobutanoic acid (Glu) MOD:00819 , meso-lanthionine MOD:00120 , D-alanine (Ala) MOD:00198 , D-alanine (Ser) MOD:00858 , D-alanine MOD:00862
E, F, G, H	MLE	Parent Component: LEU RESID: AA0253 , AA0409 , AA0111 , AA0191 , AA0337 PSI-MOD : S-(2-aminovinyl)-3-methyl-D-cysteine MOD:00258 , L-2-aminobutanoic acid (Glu) MOD:00819 , meso-lanthionine MOD:00120 , D-alanine (Ala) MOD:00198 , D-alanine (Ser) MOD:00858 , D-alanine MOD:00862 , N-methyl-L-leucine MOD:00342
E, F, G, H	MVA	Parent Component: VAL RESID: AA0253 , AA0409 , AA0111 , AA0191 , AA0337
E, F, G, H	SAR	Parent Component: GLY RESID: AA0253 , AA0409 , AA0111 , AA0191 , AA0337 , AA0063 PSI-MOD : S-(2-aminovinyl)-3-methyl-D-cysteine MOD:00258 , L-2-aminobutanoic acid (Glu) MOD:00819 , meso-lanthionine MOD:00120 , D-alanine (Ala) MOD:00198 , D-alanine (Ser) MOD:00858 , D-alanine MOD:00862 , N-methyl-L-leucine MOD:00342 , N-methylglycine MOD:00072

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.