3C8G

Crystal structure of a possible transciptional regulator YggD from Shigella flexneri 2a str. 2457T

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
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3c8ga1	All alpha proteins	MtlR-like	MtlR-like	MtlR-like	Putative transcriptional regulator YggD	(Shigella flexneri 2a str. 2457T ) [TaxId: 198215 ],	SCOPe (2.08)
A	d3c8ga2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Shigella flexneri 2a str. 2457T ) [TaxId: 198215 ],	SCOPe (2.08)
C	d3c8gc2	All alpha proteins	MtlR-like	MtlR-like	MtlR-like	Putative transcriptional regulator YggD	(Shigella flexneri 2a str. 2457T ) [TaxId: 198215 ],	SCOPe (2.08)
C	d3c8gc3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Shigella flexneri 2a str. 2457T ) [TaxId: 198215 ],	SCOPe (2.08)
B	d3c8gb1	All alpha proteins	MtlR-like	MtlR-like	MtlR-like	Putative transcriptional regulator YggD	(Shigella flexneri 2a str. 2457T ) [TaxId: 198215 ],	SCOPe (2.08)
D	d3c8gd1	All alpha proteins	MtlR-like	MtlR-like	MtlR-like	Putative transcriptional regulator YggD	(Shigella flexneri 2a str. 2457T ) [TaxId: 198215 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	MtlR-like	8039751	3001755	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	MtlR-like	8039751	3001755	SCOP2B (2022-06-29)
B	SCOP2 Family	MtlR-like	8027372	4001519	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	MtlR-like	8039751	3001755	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	MtlR-like	8039751	3001755	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	PF05068	e3c8gA1	A: alpha bundles	X: MtlR-like (From Topology)	H: MtlR-like (From Topology)	T: MtlR-like	F: PF05068	ECOD (1.6)
C	PF05068	e3c8gC1	A: alpha bundles	X: MtlR-like (From Topology)	H: MtlR-like (From Topology)	T: MtlR-like	F: PF05068	ECOD (1.6)
B	PF05068	e3c8gB1	A: alpha bundles	X: MtlR-like (From Topology)	H: MtlR-like (From Topology)	T: MtlR-like	F: PF05068	ECOD (1.6)
D	PF05068	e3c8gD1	A: alpha bundles	X: MtlR-like (From Topology)	H: MtlR-like (From Topology)	T: MtlR-like	F: PF05068	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.120.330	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	Nucleotidyltransferases domain 2	CATH (4.3.0)
C	1.20.120.330	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	Nucleotidyltransferases domain 2	CATH (4.3.0)
B	1.20.120.330	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	Nucleotidyltransferases domain 2	CATH (4.3.0)
D	1.20.120.330	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	Nucleotidyltransferases domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF05068	Mannitol repressor (MtlR)	Mannitol repressor	-	Family
B	PF05068	Mannitol repressor (MtlR)	Mannitol repressor	-	Family
D	PF05068	Mannitol repressor (MtlR)	Mannitol repressor	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	Putative transcriptional regulator	hydro-lyase activity lyase activity catalytic activity fumarate hydratase activity carbon-oxygen lyase activity	-	-
B	Putative transcriptional regulator	hydro-lyase activity lyase activity catalytic activity fumarate hydratase activity carbon-oxygen lyase activity	-	-
D	Putative transcriptional regulator	hydro-lyase activity lyase activity catalytic activity fumarate hydratase activity carbon-oxygen lyase activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR007761	Mannitol repressor MtlR-like	Family
A, C	IPR038026	MtlR-like superfamily	Homologous Superfamily
B	IPR007761	Mannitol repressor MtlR-like	Family
B	IPR038026	MtlR-like superfamily	Homologous Superfamily
D	IPR007761	Mannitol repressor MtlR-like	Family
D	IPR038026	MtlR-like superfamily	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, C	MLY	Parent Component: LYS RESID: AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084
A, C	MSE	Parent Component: MET RESID: AA0075
B	MLY	Parent Component: LYS RESID: AA0075 , AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084
B	MSE	Parent Component: MET RESID: AA0075 , AA0075
D	MLY	Parent Component: LYS RESID: AA0075 , AA0075 , AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084
D	MSE	Parent Component: MET RESID: AA0075 , AA0075 , AA0075

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 R01GM133198.