6RAO

Cryo-EM structure of the anti-feeding prophage (AFP) baseplate, 6-fold symmetrised

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
B	UNK_F_TYPE	e6raoB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: UNK_F_TYPE	ECOD (1.6)
A	UNK_F_TYPE	e6raoA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: UNK_F_TYPE	ECOD (1.6)
C	Phage_sheath_1C	e6raoC1	A: a+b duplicates or obligate multimers	X: Creatinase/aminopeptidase-like	H: gpW/gp25-like (From Topology)	T: gpW/gp25-like	F: Phage_sheath_1C	ECOD (1.6)
C	Phage_sheath_1	e6raoC2	A: a/b three-layered sandwiches	X: Subtilisin-like	H: Domain III of tail sheath protein Gp18 (From Topology)	T: Domain III of tail sheath protein Gp18	F: Phage_sheath_1	ECOD (1.6)
D	Phage_sheath_1C	e6raoD1	A: a+b duplicates or obligate multimers	X: Creatinase/aminopeptidase-like	H: gpW/gp25-like (From Topology)	T: gpW/gp25-like	F: Phage_sheath_1C	ECOD (1.6)
D	Phage_sheath_1	e6raoD2	A: a/b three-layered sandwiches	X: Subtilisin-like	H: Domain III of tail sheath protein Gp18 (From Topology)	T: Domain III of tail sheath protein Gp18	F: Phage_sheath_1	ECOD (1.6)
E [auth F]	UNK_F_TYPE	e6raoF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: UNK_F_TYPE	ECOD (1.6)
F [auth H]	GPW_gp25	e6raoH1	A: a+b duplicates or obligate multimers	X: Creatinase/aminopeptidase-like	H: gpW/gp25-like (From Topology)	T: gpW/gp25-like	F: GPW_gp25	ECOD (1.6)
G [auth E]	Phage_sheath_1C	e6raoE2	A: a+b duplicates or obligate multimers	X: Creatinase/aminopeptidase-like	H: gpW/gp25-like (From Topology)	T: gpW/gp25-like	F: Phage_sheath_1C	ECOD (1.6)
G [auth E]	Phage_sheath_1	e6raoE1	A: a/b three-layered sandwiches	X: Subtilisin-like	H: Domain III of tail sheath protein Gp18 (From Topology)	T: Domain III of tail sheath protein Gp18	F: Phage_sheath_1	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF06841	T4-like virus tail tube protein gp19 (Phage_T4_gp19)	T4-like virus tail tube protein gp19	-	Family
C	PF17482	Phage tail sheath C-terminal domain (Phage_sheath_1C)	Phage tail sheath C-terminal domain	This entry represents the C-terminal domain in a variety of phage tail sheath proteins [4].	Domain
C	PF04984	Phage tail sheath protein subtilisin-like domain (Phage_sheath_1)	Phage tail sheath protein subtilisin-like domain	This entry represents the second domain in a variety of phage tail sheath proteins. According to ECOD this domain has a subtilisin-like structure.	Domain
D	PF17482	Phage tail sheath C-terminal domain (Phage_sheath_1C)	Phage tail sheath C-terminal domain	This entry represents the C-terminal domain in a variety of phage tail sheath proteins [4].	Domain
E [auth F]	PF06841	T4-like virus tail tube protein gp19 (Phage_T4_gp19)	T4-like virus tail tube protein gp19	-	Family
F [auth H]	PF04965	Baseplate wedge protein gp25 (GPW_gp25)	Baseplate wedge protein gp25	This family represents T4 phage gp25 protein and gp25-like proteins, found in several systems, including contractile tail bacteriophages, the type VI secretion system (T6SS) and R-type pyocins, which constitute a multiprotein tubular apparatus to att ...	This family represents T4 phage gp25 protein and gp25-like proteins, found in several systems, including contractile tail bacteriophages, the type VI secretion system (T6SS) and R-type pyocins, which constitute a multiprotein tubular apparatus to attach to and penetrate host cell membranes. Gp25 is a component of the conserved wedge in the inner part of the baseplate and serves as a nucleus for sheath polymerisation, playing a critical role in sheath assembly and contraction [1,2]. The EPR motif (Glu-Pro-Arg, residues 85-87 of gp25) is conserved across all members of the family including orthologues from the RpoS-mediated general stress response system (called IraD) [3,4]. This motif interacts with the 'core bundle' composed of orthologues of T4 gp6 and gp7 proteins in contractile injection systems.	Domain
H [auth G]	PF19266	Contractile injection system tube protein (CIS_tube)	Contractile injection system tube protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Afp1	structural molecule activity	-	-
C	Afp2	-	-	-
D	Afp3	-	-	-
E [auth F]	Afp5	structural molecule activity	-	-
F [auth H]	Afp9	-	-	-
G [auth E]	Afp4	-	-	-
H [auth G]	Afp7	-	-	-
I	Afp11	-	-	-
J	Afp12	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR011747	Conserved hypothetical protein CHP02241	Family
A, B	IPR010667	Bacteriophage T4, Gp19, tail tube	Family
C	IPR020287	Tail sheath protein, C-terminal domain	Domain
C	IPR035089	Tail sheath protein, subtilisin-like domain	Domain
C	IPR052042	Bacteriophage Tail Sheath Structural Protein	Family
D	IPR020287	Tail sheath protein, C-terminal domain	Domain
D	IPR035089	Tail sheath protein, subtilisin-like domain	Domain
D	IPR052042	Bacteriophage Tail Sheath Structural Protein	Family
E [auth F]	IPR011747	Conserved hypothetical protein CHP02241	Family
E [auth F]	IPR010667	Bacteriophage T4, Gp19, tail tube	Family
F [auth H]	IPR007048	IraD/Gp25-like	Domain
G [auth E]	IPR052042	Bacteriophage Tail Sheath Structural Protein	Family
H [auth G]	IPR045361	Contractile injection system tube protein, N-terminal domain	Domain

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.