5OJQ

The modeled structure of of wild type extended type VI secretion system sheath/tube complex in vibrio cholerae based on cryo-EM reconstruction of the non-contractile sheath/tube complex


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
A [auth 1]T6SS_HCPe5ojq11 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
AA [auth T]T6SS_HCPe5ojqT1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
C [auth 2]T6SS_HCPe5ojq21 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
CA [auth V]T6SS_HCPe5ojqV1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
E [auth 3]T6SS_HCPe5ojq31 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
G [auth 4]T6SS_HCPe5ojq41 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
I [auth 5]T6SS_HCPe5ojq51 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
K [auth 6]T6SS_HCPe5ojq61 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
KA [auth M]T6SS_HCPe5ojqM1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
MA [auth O]T6SS_HCPe5ojqO1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
OA [auth Q]T6SS_HCPe5ojqQ1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
QA [auth S]T6SS_HCPe5ojqS1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
S [auth L]T6SS_HCPe5ojqL1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
SA [auth U]T6SS_HCPe5ojqU1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
U [auth N]T6SS_HCPe5ojqN1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
UA [auth W]T6SS_HCPe5ojqW1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
W [auth P]T6SS_HCPe5ojqP1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)
Y [auth R]T6SS_HCPe5ojqR1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: FMN-binding split barrelF: T6SS_HCPECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF05638Type VI secretion system effector, Hcp (T6SS_HCP)Type VI secretion system effector, HcpHCP is a family of proteins which are expressed in up to 1000 copies in Gram-negative bacteria. Together these copies aggregate into a needle-like shaft or tube that will penetrate other bacteria via a puncturing protein attached to its head [1]. In ...HCP is a family of proteins which are expressed in up to 1000 copies in Gram-negative bacteria. Together these copies aggregate into a needle-like shaft or tube that will penetrate other bacteria via a puncturing protein attached to its head [1]. Initially Hcp forms a hexameric structure with a central channel of 40 Angstroms. These hexamers pile up one on top of each other forming nanotubes resembling the gp19 tail phage tube [2].
Domain
PF05943EvpB/VC_A0108, tail sheath N-terminal domain (VipB)EvpB/VC_A0108, tail sheath N-terminal domainEvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/VipB ...EvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/VipB and TssB/TssC. On contact with another bacterial cell the sheath contracts and pushes the puncturing device and tube through the cell envelope and punches the target bacterial cell [1].
Domain
PF18945EvpB/VC_A0108, tail sheath gpW/gp25-like domain (VipB_2)EvpB/VC_A0108, tail sheath gpW/gp25-like domainEvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/Vip ...EvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/VipB and TssB/TssC. On contact with another bacterial cell the sheath contracts and pushes the puncturing device and tube through the cell envelope and punches the target bacterial cell [1]. This entry represents the gpW/gp25-like domain.
Domain
PF05591Type VI secretion system, VipA, VC_A0107 or Hcp2 (T6SS_VipA)Type VI secretion system, VipA, VC_A0107 or Hcp2- Family

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR036624Hcp1-like superfamilyHomologous Superfamily
IPR008514Type VI secretion system effector HcpFamily
IPR010269Type VI secretion system TssC-likeFamily
IPR044032TssC1, C-terminalDomain
IPR044031TssC1, N-terminalDomain
IPR008312Type VI secretion system sheath protein TssB1Family