6QS8

ClpB (DWB and K476C mutant) bound to casein in presence of ATPgammaS - state KC-2B


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyRecA-like P-loop NTPases 8039884 3002019 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyRecA-like P-loop NTPases 8039884 3002019 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyRecA-like P-loop NTPases 8039884 3002019 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyRecA-like P-loop NTPases 8039884 3002019 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyRecA-like P-loop NTPases 8039884 3002019 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyRecA-like P-loop NTPases 8039884 3002019 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AClpB_D2-smalle6qs8A3 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: ClpB_D2-smallECOD (1.6)
Achaperone_ClpBe6qs8A1 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: chaperone_ClpBECOD (1.6)
ASigma54_activate6qs8A2 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
BClpB_D2-smalle6qs8B3 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: ClpB_D2-smallECOD (1.6)
Bchaperone_ClpBe6qs8B1 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: chaperone_ClpBECOD (1.6)
BSigma54_activate6qs8B2 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
CClpB_D2-smalle6qs8C1 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: ClpB_D2-smallECOD (1.6)
Cchaperone_ClpBe6qs8C2 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: chaperone_ClpBECOD (1.6)
CSigma54_activate6qs8C3 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
DClpB_D2-smalle6qs8D1 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: ClpB_D2-smallECOD (1.6)
Dchaperone_ClpBe6qs8D2 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: chaperone_ClpBECOD (1.6)
DSigma54_activate6qs8D3 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
EClpB_D2-smalle6qs8E2 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: ClpB_D2-smallECOD (1.6)
Echaperone_ClpBe6qs8E3 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: chaperone_ClpBECOD (1.6)
ESigma54_activate6qs8E1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
FClpB_D2-smalle6qs8F2 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: ClpB_D2-smallECOD (1.6)
Fchaperone_ClpBe6qs8F1 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: chaperone_ClpBECOD (1.6)
FSigma54_activate6qs8F4 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D, E
PF10431C-terminal, D2-small domain, of ClpB protein (ClpB_D2-small)C-terminal, D2-small domain, of ClpB proteinThis is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA, Pfam:PF00004) it lacks the long coiled-coil insertion, and instead of helix C4 ...This is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA, Pfam:PF00004) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit and thereby providing enough binding energy to stabilise the functional assembly [1]. The domain is associated with two Clp_N, Pfam:PF02861, at the N-terminus as well as AAA, Pfam:PF00004 and AAA_2, Pfam:PF07724.
Domain
A, B, C, D, E
PF17871AAA lid domain (AAA_lid_9)AAA lid domainThis entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.Domain
A, B, C, D, E
PF00004ATPase family associated with various cellular activities (AAA) (AAA)ATPase family associated with various cellular activities (AAA)AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2].Domain
A, B, C, D, E
PF07724AAA domain (Cdc48 subfamily) (AAA_2)AAA domain (Cdc48 subfamily)This Pfam entry includes some of the AAA proteins not detected by the Pfam:PF00004 model.Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D, E
Chaperone protein ClpB
G [auth S]casein---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D, E
IPR001270ClpA/B familyFamily
A, B, C, D, E
IPR018368ClpA/B, conserved site 1Conserved Site
A, B, C, D, E
IPR041546ClpA/ClpB, AAA lid domainDomain
A, B, C, D, E
IPR050130ATP-dependent Clp protease/Chaperone ClpA/ClpBFamily
A, B, C, D, E
IPR004176Clp, repeat (R) domainDomain
A, B, C, D, E
IPR028299ClpA/B, conserved site 2Conserved Site
A, B, C, D, E
IPR017730Chaperonin ClpBFamily
A, B, C, D, E
IPR003593AAA+ ATPase domainDomain
A, B, C, D, E
IPR003959ATPase, AAA-type, coreDomain
A, B, C, D, E
IPR019489Clp ATPase, C-terminalDomain
A, B, C, D, E
IPR036628Clp, N-terminal domain superfamilyHomologous Superfamily
A, B, C, D, E
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily