9MJN | pdb_00009mjn

Near complete virion structure of bacteriophage PhiTE

External Resource: Annotation


Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF11681Bacteriophage PhiTE tail tube protein (Phage_Tube_PhiTE)Bacteriophage PhiTE tail tube proteinThis entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked ...This entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked by a large alpha-helix. The luminal components of each tube protein's beta-sandwich intercalate with adjacent tube proteins in the hexameric disk to form a continuous 24-stranded beta-barrel on the internal surface of each ring. The inner tube lumen has a strong negative charge distribution, typical of bacteriophage DNA conduits. An extended beta-hairpin motif extends between strands 2 and 5 of the beta-sandwich and wraps around the tube, making contacts with loops from head distal tube subunits. The C-terminal arm features a second alpha-helix that wraps laterally around adjacent subunits and forms strong hydrophobic contacts with helices from the sheath D1 domain.
Domain
PF23961Phage neck terminator protein (Phage_tail_terminator_9)Phage neck terminator proteinThis entry represents the neck terminator protein gp12 from cyanophage Pam3 [1]. Six gp12 subunits form a hexameric ring that terminates neck assembly and links to the tail tube/sheath. Each subunit has an N-terminal loop, a conserved globular domain ...This entry represents the neck terminator protein gp12 from cyanophage Pam3 [1]. Six gp12 subunits form a hexameric ring that terminates neck assembly and links to the tail tube/sheath. Each subunit has an N-terminal loop, a conserved globular domain, and a protruding beta-sheet domain.
Domain
PF18352Phage protein Gp138 N-terminal domain (Gp138_N)Phage protein Gp138 N-terminal domainThis domain is found in the N-terminal domain of gene product 138 (gp138) in an unidentified bacteriophage. Gp138 is thought to be involved in the process of opening the host cell membrane during infection. The domain has an OB-fold with an intramole ...This domain is found in the N-terminal domain of gene product 138 (gp138) in an unidentified bacteriophage. Gp138 is thought to be involved in the process of opening the host cell membrane during infection. The domain has an OB-fold with an intramolecular disulfide bond between C114 and C120 [1].
Domain
PF11681Bacteriophage PhiTE tail tube protein (Phage_Tube_PhiTE)Bacteriophage PhiTE tail tube proteinThis entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked ...This entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked by a large alpha-helix. The luminal components of each tube protein's beta-sandwich intercalate with adjacent tube proteins in the hexameric disk to form a continuous 24-stranded beta-barrel on the internal surface of each ring. The inner tube lumen has a strong negative charge distribution, typical of bacteriophage DNA conduits. An extended beta-hairpin motif extends between strands 2 and 5 of the beta-sandwich and wraps around the tube, making contacts with loops from head distal tube subunits. The C-terminal arm features a second alpha-helix that wraps laterally around adjacent subunits and forms strong hydrophobic contacts with helices from the sheath D1 domain.
Domain
PF11041Bacteriophage baseplate wedge 1 protein (Phage_Wedge1)Bacteriophage baseplate wedge 1 protein- Family
PF10934Contractile injection system sheath initiator (Sheath_initiator)Contractile injection system sheath initiator- Family
PF26075Bacteriophage PhiTE adapter protein (Phage_Adaptor_PhiTE)Bacteriophage PhiTE adapter protein- Family
PF22479Cyanophage baseplate Pam3 plug gp18 (Pam3_gp18)Cyanophage baseplate Pam3 plug gp18This family, previously known as DUF6983, represents Cyanophage baseplate Pam3 plug gp18 and related proteins. Gp18 has structural similarity to a component of the baseplate Complex for Myoviridae Phage XM1. The cyanophage Pam3 has a substantially si ...This family, previously known as DUF6983, represents Cyanophage baseplate Pam3 plug gp18 and related proteins. Gp18 has structural similarity to a component of the baseplate Complex for Myoviridae Phage XM1. The cyanophage Pam3 has a substantially simpler molecular organisation than the prototypical, contractile-tail bacteriophage T4, but it retains the essential elements required for DNA injection. The baseplate of Pam3 contains six protein components: the trimeric spike gp20, the trimeric hub gp19, the baseplate wedge (six heterotriplexes of gp22-gp23), the plug of six gp18 monomers, and the fibers (12 trimers of gp24) [1]. The plug gp18 consists of two-layered beta-sheets and a C-terminal alpha-helix, resembling the immunoglobin fold. Each plug monomer is embedded between the two C-terminal helices of the tube initiator, forming a 'plug' to fix the core helical bundle of the wedge onto the hub [1]
Domain
PF21821Dit-like phage tail protein (Dit_like)Dit-like phage tail proteinThis entry represents a large family of proteins that have a RIFT-like barrel structure which is related to the Dit phage protein from SPP1. Domain
PF03864Phage major capsid protein E (Phage_cap_E)Phage major capsid protein E- Family
PF26208Putative phage tail fibre N-terminal domain (Phage_phiTE_241_N)Putative phage tail fibre N-terminal domainThis entry represents the N-terminal region of a putative phage tail fibre protein. The family includes Phage PhiTE protein phiTE_241 Swiss:K9L5R6. These proteins are predicted to form a homotrimeric arrangement. Domain
PF23961Phage neck terminator protein (Phage_tail_terminator_9)Phage neck terminator proteinThis entry represents the neck terminator protein gp12 from cyanophage Pam3 [1]. Six gp12 subunits form a hexameric ring that terminates neck assembly and links to the tail tube/sheath. Each subunit has an N-terminal loop, a conserved globular domain ...This entry represents the neck terminator protein gp12 from cyanophage Pam3 [1]. Six gp12 subunits form a hexameric ring that terminates neck assembly and links to the tail tube/sheath. Each subunit has an N-terminal loop, a conserved globular domain, and a protruding beta-sheet domain.
Domain
PF11681Bacteriophage PhiTE tail tube protein (Phage_Tube_PhiTE)Bacteriophage PhiTE tail tube proteinThis entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked ...This entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked by a large alpha-helix. The luminal components of each tube protein's beta-sandwich intercalate with adjacent tube proteins in the hexameric disk to form a continuous 24-stranded beta-barrel on the internal surface of each ring. The inner tube lumen has a strong negative charge distribution, typical of bacteriophage DNA conduits. An extended beta-hairpin motif extends between strands 2 and 5 of the beta-sandwich and wraps around the tube, making contacts with loops from head distal tube subunits. The C-terminal arm features a second alpha-helix that wraps laterally around adjacent subunits and forms strong hydrophobic contacts with helices from the sheath D1 domain.
Domain
PF11041Bacteriophage baseplate wedge 1 protein (Phage_Wedge1)Bacteriophage baseplate wedge 1 protein- Family
PF05521Phage head completion protein (Phage_HCP)Phage head completion proteinThis entry represents the head completion protein (gp16) found in Siphoviridae bacteriophages. This protein functions as a stopper in the portal-tail connector complex, locking the viral DNA inside the capsid. During infection, it undergoes a conform ...This entry represents the head completion protein (gp16) found in Siphoviridae bacteriophages. This protein functions as a stopper in the portal-tail connector complex, locking the viral DNA inside the capsid. During infection, it undergoes a conformational change, opening by a diaphragm-like motion to allow the genome to exit the capsid through the tail tube to the host cell. The protein also functions as a docking platform for the preassembled tail. The connector complex is essential for stable viral particle assembly and controlled genome release during host infection.
Domain
PF10934Contractile injection system sheath initiator (Sheath_initiator)Contractile injection system sheath initiator- Family
PF22479Cyanophage baseplate Pam3 plug gp18 (Pam3_gp18)Cyanophage baseplate Pam3 plug gp18This family, previously known as DUF6983, represents Cyanophage baseplate Pam3 plug gp18 and related proteins. Gp18 has structural similarity to a component of the baseplate Complex for Myoviridae Phage XM1. The cyanophage Pam3 has a substantially si ...This family, previously known as DUF6983, represents Cyanophage baseplate Pam3 plug gp18 and related proteins. Gp18 has structural similarity to a component of the baseplate Complex for Myoviridae Phage XM1. The cyanophage Pam3 has a substantially simpler molecular organisation than the prototypical, contractile-tail bacteriophage T4, but it retains the essential elements required for DNA injection. The baseplate of Pam3 contains six protein components: the trimeric spike gp20, the trimeric hub gp19, the baseplate wedge (six heterotriplexes of gp22-gp23), the plug of six gp18 monomers, and the fibers (12 trimers of gp24) [1]. The plug gp18 consists of two-layered beta-sheets and a C-terminal alpha-helix, resembling the immunoglobin fold. Each plug monomer is embedded between the two C-terminal helices of the tube initiator, forming a 'plug' to fix the core helical bundle of the wedge onto the hub [1]
Domain
PF21821Dit-like phage tail protein (Dit_like)Dit-like phage tail proteinThis entry represents a large family of proteins that have a RIFT-like barrel structure which is related to the Dit phage protein from SPP1. Domain
PF03864Phage major capsid protein E (Phage_cap_E)Phage major capsid protein E- Family
PF26208Putative phage tail fibre N-terminal domain (Phage_phiTE_241_N)Putative phage tail fibre N-terminal domainThis entry represents the N-terminal region of a putative phage tail fibre protein. The family includes Phage PhiTE protein phiTE_241 Swiss:K9L5R6. These proteins are predicted to form a homotrimeric arrangement. Domain
PF18352Phage protein Gp138 N-terminal domain (Gp138_N)Phage protein Gp138 N-terminal domainThis domain is found in the N-terminal domain of gene product 138 (gp138) in an unidentified bacteriophage. Gp138 is thought to be involved in the process of opening the host cell membrane during infection. The domain has an OB-fold with an intramole ...This domain is found in the N-terminal domain of gene product 138 (gp138) in an unidentified bacteriophage. Gp138 is thought to be involved in the process of opening the host cell membrane during infection. The domain has an OB-fold with an intramolecular disulfide bond between C114 and C120 [1].
Domain
PF11681Bacteriophage PhiTE tail tube protein (Phage_Tube_PhiTE)Bacteriophage PhiTE tail tube proteinThis entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked ...This entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked by a large alpha-helix. The luminal components of each tube protein's beta-sandwich intercalate with adjacent tube proteins in the hexameric disk to form a continuous 24-stranded beta-barrel on the internal surface of each ring. The inner tube lumen has a strong negative charge distribution, typical of bacteriophage DNA conduits. An extended beta-hairpin motif extends between strands 2 and 5 of the beta-sandwich and wraps around the tube, making contacts with loops from head distal tube subunits. The C-terminal arm features a second alpha-helix that wraps laterally around adjacent subunits and forms strong hydrophobic contacts with helices from the sheath D1 domain.
Domain
PF11041Bacteriophage baseplate wedge 1 protein (Phage_Wedge1)Bacteriophage baseplate wedge 1 protein- Family
PF03864Phage major capsid protein E (Phage_cap_E)Phage major capsid protein E- Family
PF18352Phage protein Gp138 N-terminal domain (Gp138_N)Phage protein Gp138 N-terminal domainThis domain is found in the N-terminal domain of gene product 138 (gp138) in an unidentified bacteriophage. Gp138 is thought to be involved in the process of opening the host cell membrane during infection. The domain has an OB-fold with an intramole ...This domain is found in the N-terminal domain of gene product 138 (gp138) in an unidentified bacteriophage. Gp138 is thought to be involved in the process of opening the host cell membrane during infection. The domain has an OB-fold with an intramolecular disulfide bond between C114 and C120 [1].
Domain
PF11681Bacteriophage PhiTE tail tube protein (Phage_Tube_PhiTE)Bacteriophage PhiTE tail tube proteinThis entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked ...This entry includes the tail tube protein of bacteriophage PhiTE that infects the plant pathogen Pectobacterium atrosepticum. The tube protein forms the rigid inner tube of the phage tail and consists of a primary eight-stranded beta-sandwich flanked by a large alpha-helix. The luminal components of each tube protein's beta-sandwich intercalate with adjacent tube proteins in the hexameric disk to form a continuous 24-stranded beta-barrel on the internal surface of each ring. The inner tube lumen has a strong negative charge distribution, typical of bacteriophage DNA conduits. An extended beta-hairpin motif extends between strands 2 and 5 of the beta-sandwich and wraps around the tube, making contacts with loops from head distal tube subunits. The C-terminal arm features a second alpha-helix that wraps laterally around adjacent subunits and forms strong hydrophobic contacts with helices from the sheath D1 domain.
Domain
PF11041Bacteriophage baseplate wedge 1 protein (Phage_Wedge1)Bacteriophage baseplate wedge 1 protein- Family
PF10934Contractile injection system sheath initiator (Sheath_initiator)Contractile injection system sheath initiator- Family
PF22479Cyanophage baseplate Pam3 plug gp18 (Pam3_gp18)Cyanophage baseplate Pam3 plug gp18This family, previously known as DUF6983, represents Cyanophage baseplate Pam3 plug gp18 and related proteins. Gp18 has structural similarity to a component of the baseplate Complex for Myoviridae Phage XM1. The cyanophage Pam3 has a substantially si ...This family, previously known as DUF6983, represents Cyanophage baseplate Pam3 plug gp18 and related proteins. Gp18 has structural similarity to a component of the baseplate Complex for Myoviridae Phage XM1. The cyanophage Pam3 has a substantially simpler molecular organisation than the prototypical, contractile-tail bacteriophage T4, but it retains the essential elements required for DNA injection. The baseplate of Pam3 contains six protein components: the trimeric spike gp20, the trimeric hub gp19, the baseplate wedge (six heterotriplexes of gp22-gp23), the plug of six gp18 monomers, and the fibers (12 trimers of gp24) [1]. The plug gp18 consists of two-layered beta-sheets and a C-terminal alpha-helix, resembling the immunoglobin fold. Each plug monomer is embedded between the two C-terminal helices of the tube initiator, forming a 'plug' to fix the core helical bundle of the wedge onto the hub [1]
Domain
PF21821Dit-like phage tail protein (Dit_like)Dit-like phage tail proteinThis entry represents a large family of proteins that have a RIFT-like barrel structure which is related to the Dit phage protein from SPP1. Domain
PF03864Phage major capsid protein E (Phage_cap_E)Phage major capsid protein E- Family
PF26208Putative phage tail fibre N-terminal domain (Phage_phiTE_241_N)Putative phage tail fibre N-terminal domainThis entry represents the N-terminal region of a putative phage tail fibre protein. The family includes Phage PhiTE protein phiTE_241 Swiss:K9L5R6. These proteins are predicted to form a homotrimeric arrangement. Domain
PF05521Phage head completion protein (Phage_HCP)Phage head completion proteinThis entry represents the head completion protein (gp16) found in Siphoviridae bacteriophages. This protein functions as a stopper in the portal-tail connector complex, locking the viral DNA inside the capsid. During infection, it undergoes a conform ...This entry represents the head completion protein (gp16) found in Siphoviridae bacteriophages. This protein functions as a stopper in the portal-tail connector complex, locking the viral DNA inside the capsid. During infection, it undergoes a conformational change, opening by a diaphragm-like motion to allow the genome to exit the capsid through the tail tube to the host cell. The protein also functions as a docking platform for the preassembled tail. The connector complex is essential for stable viral particle assembly and controlled genome release during host infection.
Domain
PF26075Bacteriophage PhiTE adapter protein (Phage_Adaptor_PhiTE)Bacteriophage PhiTE adapter protein- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Portal protein- - -
PhiTE tail terminator protein- - -
Structural protein- - -
Tail sheath protein- - -
Head stabilization/decoration protein- - -
Major capsid protein- -
Cyanophage baseplate Pam3 plug gp18 domain-containing protein- - -
Wedge 1 protein- - -
FVB [auth eW],
NTB [auth dp],
ZTB [auth e0]		Putative tape measure protein- -
GVB [auth eX],
KWB [auth fA],
OTB [auth dq]		Tail protein- - -
Short tail fiber-
Putative tail fiber protein- - -
PhiTE head completion protein- - -
PhiTE adaptor protein- - -
HVB [auth eY],
LWB [auth fB],
PTB [auth dr]		Putative baseplate assembly protein- - -
baseplate assembly protein- - -
Dit-like phage tail protein N-terminal domain-containing protein- - -
Sheath initiator protein- - -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR057087Phage neck terminator protein gp12-likeDomain
IPR021695Structural protein ORF10, bacteriophage KPP10Family
IPR058875Minor capsid decoration proteinFamily
IPR005564Major capsid protein GpEFamily
IPR054252Cyanophage baseplate Pam3 plug gp18Domain
IPR021283Bacteriophage baseplate wedge 1 proteinFamily
FVB [auth eW],
NTB [auth dp],
ZTB [auth e0]		IPR013491Tape measure protein N-terminalDomain
IPR051934Bacteriophage Tail Fiber Structural ProteinFamily
IPR037053Phage tail collar domain superfamilyHomologous Superfamily
IPR011083Phage tail collar domainDomain
IPR003343Bacterial Ig-like domain, group 2Domain
IPR008964Invasin/intimin cell-adhesion fragmentsHomologous Superfamily
IPR058969Putative phage tail fibre, N-terminal domainDomain
IPR058970Putative phage tail fibre, C-terminal domainDomain
IPR008767Bacteriophage SPP1, head-tail adaptorFamily
IPR058761PhiTE adapter protein-likeFamily
HVB [auth eY],
LWB [auth fB],
PTB [auth dr]		IPR037026Vgr protein, OB-fold domain superfamilyHomologous Superfamily
HVB [auth eY],
LWB [auth fB],
PTB [auth dr]		IPR041599Phage protein Gp138 N-terminal domainDomain
IPR048494Dit-like phage tail protein, N-terminal domainDomain
IPR020288Contractile injection system sheath initiatorFamily