2C4U | pdb_00002c4u

Crystal structure of the apo form of the 5'-Fluoro-5'-deoxyadenosine synthase enzyme from Streptomyces cattleya

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d2c4uf1	All beta proteins	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
F	d2c4uf2	Alpha and beta proteins (a/b)	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
E	d2c4ue1	All beta proteins	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
E	d2c4ue2	Alpha and beta proteins (a/b)	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
D	d2c4ud1	All beta proteins	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
D	d2c4ud2	Alpha and beta proteins (a/b)	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
C	d2c4uc1	All beta proteins	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
C	d2c4uc2	Alpha and beta proteins (a/b)	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
B	d2c4ub1	All beta proteins	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
B	d2c4ub2	Alpha and beta proteins (a/b)	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
A	d2c4ua1	All beta proteins	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	Bacterial fluorinating enzyme, C-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)
A	d2c4ua2	Alpha and beta proteins (a/b)	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	Bacterial fluorinating enzyme, N-terminal domain	5'-fluoro-5'-deoxyadenosine synthase	(Streptantibioticus cattleyicolor ) [TaxId: 29303 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Bacterial fluorinating enzyme, N-terminal domain	8040852	3000872	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Bacterial fluorinating enzyme, C-terminal domain	8040851	3001954	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Bacterial fluorinating enzyme, N-terminal domain	8040852	3000872	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Bacterial fluorinating enzyme, C-terminal domain	8040851	3001954	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Bacterial fluorinating enzyme, C-terminal domain	8040851	3001954	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Bacterial fluorinating enzyme, N-terminal domain	8040852	3000872	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Bacterial fluorinating enzyme, N-terminal domain	8040852	3000872	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Bacterial fluorinating enzyme, C-terminal domain	8040851	3001954	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Bacterial fluorinating enzyme, C-terminal domain	8040851	3001954	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Bacterial fluorinating enzyme, N-terminal domain	8040852	3000872	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Bacterial fluorinating enzyme, C-terminal domain	8040851	3001954	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Bacterial fluorinating enzyme, N-terminal domain	8040852	3000872	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)
F	SAM_adeno_trans_C	e2c4uF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Bacterial fluorinating enzyme-C	F: SAM_adeno_trans_C	ECOD (1.6)
F	SAM_adeno_trans_N	e2c4uF2	A: a/b three-layered sandwiches	X: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	H: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	T: Bacterial fluorinating enzyme, N-terminal domain	F: SAM_adeno_trans_N	ECOD (1.6)
E	SAM_adeno_trans_C	e2c4uE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Bacterial fluorinating enzyme-C	F: SAM_adeno_trans_C	ECOD (1.6)
E	SAM_adeno_trans_N	e2c4uE2	A: a/b three-layered sandwiches	X: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	H: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	T: Bacterial fluorinating enzyme, N-terminal domain	F: SAM_adeno_trans_N	ECOD (1.6)
D	SAM_adeno_trans_C	e2c4uD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Bacterial fluorinating enzyme-C	F: SAM_adeno_trans_C	ECOD (1.6)
D	SAM_adeno_trans_N	e2c4uD2	A: a/b three-layered sandwiches	X: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	H: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	T: Bacterial fluorinating enzyme, N-terminal domain	F: SAM_adeno_trans_N	ECOD (1.6)
C	SAM_adeno_trans_C	e2c4uC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Bacterial fluorinating enzyme-C	F: SAM_adeno_trans_C	ECOD (1.6)
C	SAM_adeno_trans_N	e2c4uC2	A: a/b three-layered sandwiches	X: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	H: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	T: Bacterial fluorinating enzyme, N-terminal domain	F: SAM_adeno_trans_N	ECOD (1.6)
B	SAM_adeno_trans_C	e2c4uB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Bacterial fluorinating enzyme-C	F: SAM_adeno_trans_C	ECOD (1.6)
B	SAM_adeno_trans_N	e2c4uB2	A: a/b three-layered sandwiches	X: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	H: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	T: Bacterial fluorinating enzyme, N-terminal domain	F: SAM_adeno_trans_N	ECOD (1.6)
A	SAM_adeno_trans_C	e2c4uA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Bacterial fluorinating enzyme-C	F: SAM_adeno_trans_C	ECOD (1.6)
A	SAM_adeno_trans_N	e2c4uA2	A: a/b three-layered sandwiches	X: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	H: Bacterial fluorinating enzyme, N-terminal domain (From Topology)	T: Bacterial fluorinating enzyme, N-terminal domain	F: SAM_adeno_trans_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.40.50.10790	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	S-adenosyl-l-methionine hydroxide adenosyltransferase, N-terminal	CATH (4.3.0)
F	2.40.30.90	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
E	3.40.50.10790	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	S-adenosyl-l-methionine hydroxide adenosyltransferase, N-terminal	CATH (4.3.0)
E	2.40.30.90	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
D	3.40.50.10790	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	S-adenosyl-l-methionine hydroxide adenosyltransferase, N-terminal	CATH (4.3.0)
D	2.40.30.90	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
C	3.40.50.10790	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	S-adenosyl-l-methionine hydroxide adenosyltransferase, N-terminal	CATH (4.3.0)
C	2.40.30.90	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
B	3.40.50.10790	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	S-adenosyl-l-methionine hydroxide adenosyltransferase, N-terminal	CATH (4.3.0)
B	2.40.30.90	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
A	3.40.50.10790	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	S-adenosyl-l-methionine hydroxide adenosyltransferase, N-terminal	CATH (4.3.0)
A	2.40.30.90	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF01887	SAM hydroxide adenosyltransferase N-terminal domain (SAM_HAT_N)	SAM hydroxide adenosyltransferase N-terminal domain	This is a family of proteins, previously known as DUF62, found in archaebacteria and bacteria. The structure of proteins in this family is similar to that of a bacterial fluorinating enzyme [1]. S-adenosyl-l-methionine hydroxide adenosyltransferases ...	This is a family of proteins, previously known as DUF62, found in archaebacteria and bacteria. The structure of proteins in this family is similar to that of a bacterial fluorinating enzyme [1]. S-adenosyl-l-methionine hydroxide adenosyltransferases utilises a rigorously conserved amino acid side chain triad (Asp-Arg-His) which may have a role in activating water to hydroxide ion [2]. This family used to be known as DUF62.	Domain
A, B, C, D, E A, B, C, D, E, F	PF20257	SAM hydroxide adenosyltransferase C-terminal domain (SAM_HAT_C)	SAM hydroxide adenosyltransferase C-terminal domain	This is a family of proteins, previously known as DUF62, found in archaebacteria and bacteria. The structure of proteins in this family is similar to that of a bacterial fluorinating enzyme [1]. S-adenosyl-l-methionine hydroxide adenosyltransferases ...	This is a family of proteins, previously known as DUF62, found in archaebacteria and bacteria. The structure of proteins in this family is similar to that of a bacterial fluorinating enzyme [1]. S-adenosyl-l-methionine hydroxide adenosyltransferases utilises a rigorously conserved amino acid side chain triad (Asp-Arg-His) which may have a role in activating water to hydroxide ion [2]. This family used to be known as DUF62. This entry represents the C-terminal domain of these enzymes.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	5'-FLUORO-5'-DEOXYADENOSINE SYNTHASE	adenosyl-fluoride synthase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR023227	S-adenosyl-l-methionine hydroxide adenosyltransferase, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR023228	S-adenosyl-l-methionine hydroxide adenosyltransferase, N-terminal domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR046469	S-adenosyl-l-methionine hydroxide adenosyltransferase, N-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR002747	S-adenosyl-l-methionine hydroxide adenosyltransferase	Family
A, B, C, D, E A, B, C, D, E, F	IPR046470	S-adenosyl-l-methionine hydroxide adenosyltransferase, C-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR030978	Fluorinase	Family

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.