5TZF

Structure of the BldD CTD(D116A)-(c-di-GMP)2 intermediate, form 1

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth J]	BldD_C_like	e5tzfJ1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: BldD_C_like	ECOD (1.6)
B	BldD_C_like	e5tzfB1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: BldD_C_like	ECOD (1.6)
C [auth E]	BldD_C_like	e5tzfE1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: BldD_C_like	ECOD (1.6)
D	BldD_C_like	e5tzfD1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: BldD_C_like	ECOD (1.6)
E [auth I]	BldD_C_like	e5tzfI1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: BldD_C_like	ECOD (1.6)
F [auth H]	BldD_C_like	e5tzfH1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: BldD_C_like	ECOD (1.6)
G [auth N]	BldD_C_like	e5tzfN1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: BldD_C_like	ECOD (1.6)
H [auth M]	BldD_C_like	e5tzfM1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: BldD_C_like	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth J]	1.10.10.1930	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
B	1.10.10.1930	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
C [auth E]	1.10.10.1930	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
D	1.10.10.1930	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
E [auth I]	1.10.10.1930	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
F [auth H]	1.10.10.1930	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
G [auth N]	1.10.10.1930	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
H [auth M]	1.10.10.1930	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth J], B, C [auth E], D, E [auth I], A [auth J], B, C [auth E], D, E [auth I], F [auth H], G [auth N], H [auth M]	PF21179	DNA-binding protein BldD-like, C-terminal domain (BldD-like_C)	DNA-binding protein BldD-like, C-terminal domain	This domain is found at the C-terminal end of DNA-binding protein BldD from Streptomyces venezuelae (Swiss:F2RCL8) and similar proteins found in Actinobacteria. This domain shows two beta-alpha- alpha repeats and a short C-terminal helix. It is respo ...	This domain is found at the C-terminal end of DNA-binding protein BldD from Streptomyces venezuelae (Swiss:F2RCL8) and similar proteins found in Actinobacteria. This domain shows two beta-alpha- alpha repeats and a short C-terminal helix. It is responsible for the binding of the protein to the second messenger 3',5'-cyclic diguanylic acid (c-di-GMP) [1-3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth J], B, C [auth E], D, E [auth I], A [auth J], B, C [auth E], D, E [auth I], F [auth H], G [auth N], H [auth M]	DNA-binding protein	DNA binding binding organic cyclic compound binding nucleic acid binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding cation binding ion binding metal ion binding	regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cellular process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth J], B, C [auth E], D, E [auth I], A [auth J], B, C [auth E], D, E [auth I], F [auth H], G [auth N], H [auth M]	IPR038099	BldD-like, C-terminal domain superfamily	Homologous Superfamily
A [auth J], B, C [auth E], D, E [auth I], A [auth J], B, C [auth E], D, E [auth I], F [auth H], G [auth N], H [auth M]	IPR037664	BldD, C-terminal	Domain
A [auth J], B, C [auth E], D, E [auth I], A [auth J], B, C [auth E], D, E [auth I], F [auth H], G [auth N], H [auth M]	IPR001387	Cro/C1-type helix-turn-helix domain	Domain
A [auth J], B, C [auth E], D, E [auth I], A [auth J], B, C [auth E], D, E [auth I], F [auth H], G [auth N], H [auth M]	IPR010982	Lambda repressor-like, DNA-binding domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.