1ZKU | pdb_00001zku

Fitting of the gp9 structure in the EM density of bacteriophage T4 extended tail


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

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Rd1zkur1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Qd1zkuq1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Pd1zkup1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Od1zkuo1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Nd1zkun1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Md1zkum1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Ld1zkul1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Kd1zkuk1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Jd1zkuj1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Id1zkui1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Hd1zkuh1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Gd1zkug1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Fd1zkuf1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Ed1zkue1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Dd1zkud1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Cd1zkuc1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Bd1zkub1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)
Ad1zkua1 All beta proteins gp9 gp9 gp9 gp9 (Tequatrovirus T4 ) [TaxId: 10665 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
RSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
QSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
PSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
OSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
NSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
MSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
LSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
KSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
JSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
ISCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
HSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
GSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
FSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
ESCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
DSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
CSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
BSCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)
ASCOP2B Superfamilygp9 8041251 3000227 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
RSigma_1_2e1zkuR1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
QSigma_1_2e1zkuQ1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
PSigma_1_2e1zkuP1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
OSigma_1_2e1zkuO1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
NSigma_1_2e1zkuN1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
MSigma_1_2e1zkuM1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
LSigma_1_2e1zkuL1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
KSigma_1_2e1zkuK1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
JSigma_1_2e1zkuJ1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
ISigma_1_2e1zkuI1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
HSigma_1_2e1zkuH1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
GSigma_1_2e1zkuG1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
FSigma_1_2e1zkuF1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
ESigma_1_2e1zkuE1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
DSigma_1_2e1zkuD1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
CSigma_1_2e1zkuC1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
BSigma_1_2e1zkuB1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)
ASigma_1_2e1zkuA1 A: alpha bundlesX: HTHH: NudixT: winged helix domainF: Sigma_1_2ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D, E
PF07880Bacteriophage T4 gp9/10-like protein, N-terminal (T4_gp9_10_N)Bacteriophage T4 gp9/10-like protein, N-terminalThis entry represents the N-terminal domain of Baseplate protein gp9 from Bacteriophage T4, a component of the viral baseplate [1]. Gp9 connects the long tail fibres of the virus to the baseplate and triggers tail contraction after viral attachment t ...This entry represents the N-terminal domain of Baseplate protein gp9 from Bacteriophage T4, a component of the viral baseplate [1]. Gp9 connects the long tail fibres of the virus to the baseplate and triggers tail contraction after viral attachment to a host cell. The protein is active as a trimer, with each monomer being composed of three domains. The N-terminal domain consists of an extended polypeptide chain and two alpha helices. The alpha1 helix from each of the three monomers in the trimer interacts with its counterparts to form a coiled-coil structure. The middle domain is a seven-stranded beta-sandwich. This entry represents the region including these two domains. Noticeably, the long flexible region between N-terminal and middle domains may be required for the function of gp9 to transmit signals from the long tail fibres [2]. Together with gp11, gp10 initiates the assembly of wedges that then go on to associate with a hub to form the viral baseplate [1].
Domain
A, B, C, D, E
PF23618Bacteriophage T4 gp9/10-like protein, C-terminal (T4_gp9_10_C)Bacteriophage T4 gp9/10-like protein, C-terminalThis entry represents the C-terminal domain of Baseplate protein gp9 from Bacteriophage T4, a component of the viral baseplate [1]. Gp9 connects the long tail fibres of the virus to the baseplate and triggers tail contraction after viral attachment t ...This entry represents the C-terminal domain of Baseplate protein gp9 from Bacteriophage T4, a component of the viral baseplate [1]. Gp9 connects the long tail fibres of the virus to the baseplate and triggers tail contraction after viral attachment to a host cell. The protein is active as a trimer, with each monomer being composed of three domains. The C-terminal domain is thought to be essential for trimerisation and is organised into an eight- stranded antiparallel beta-barrel, which was found to resemble the 'jelly roll' fold found in many viral capsid proteins [2]. Together with gp11, gp10 initiates the assembly of wedges that then go on to associate with a hub to form the viral baseplate [1].
Domain

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D, E
IPR036240Gp9-like superfamilyHomologous Superfamily
A, B, C, D, E
IPR008987Baseplate structural protein Gp9/Gp10, N-terminal domainDomain
A, B, C, D, E
IPR027412Baseplate structural protein Gp9 C-terminal domain superfamilyHomologous Superfamily
A, B, C, D, E
IPR056391Baseplate protein gp9-like, C-terminalDomain
A, B, C, D, E
IPR027411Baseplate structural protein Gp9/Gp10 middle domain superfamilyHomologous Superfamily