7LN0

Cryo-EM structure of human p97 in complex with Npl4/Ufd1 and Ub6 (Class 2)


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
ACDC48_Ne7ln0A5 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: CDC48_NECOD (1.6)
ACDC48e7ln0A1 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: CDC48ECOD (1.6)
AVps4_C_Ce7ln0A6 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: Vps4_C_CECOD (1.6)
ACDC48_2e7ln0A3 A: a+b two layersX: Cdc48 domain 2-like (From Topology)H: Cdc48 domain 2-like (From Topology)T: Cdc48 domain 2-likeF: CDC48_2ECOD (1.6)
ASigma54_activate7ln0A4 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
BCDC48_Ne7ln0B1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: CDC48_NECOD (1.6)
BCDC48e7ln0B3 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: CDC48ECOD (1.6)
BVps4_C_Ce7ln0B4 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: Vps4_C_CECOD (1.6)
BCDC48_2e7ln0B5 A: a+b two layersX: Cdc48 domain 2-like (From Topology)H: Cdc48 domain 2-like (From Topology)T: Cdc48 domain 2-likeF: CDC48_2ECOD (1.6)
BSigma54_activate7ln0B2 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
CCDC48_Ne7ln0C4 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: CDC48_NECOD (1.6)
CCDC48e7ln0C3 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: CDC48ECOD (1.6)
CVps4_C_Ce7ln0C1 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: Vps4_C_CECOD (1.6)
CCDC48_2e7ln0C5 A: a+b two layersX: Cdc48 domain 2-like (From Topology)H: Cdc48 domain 2-like (From Topology)T: Cdc48 domain 2-likeF: CDC48_2ECOD (1.6)
CSigma54_activate7ln0C6 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
CSigma54_activat,Vps4_C_Ce7ln0C2 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activat,Vps4_C_CECOD (1.6)
DCDC48_Ne7ln0D6 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: CDC48_NECOD (1.6)
DCDC48e7ln0D4 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: CDC48ECOD (1.6)
DVps4_C_Ce7ln0D2 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: Vps4_C_CECOD (1.6)
DCDC48_2e7ln0D1 A: a+b two layersX: Cdc48 domain 2-like (From Topology)H: Cdc48 domain 2-like (From Topology)T: Cdc48 domain 2-likeF: CDC48_2ECOD (1.6)
DSigma54_activate7ln0D5 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
DSigma54_activat,Vps4_C_Ce7ln0D3 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activat,Vps4_C_CECOD (1.6)
ECDC48_Ne7ln0E3 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: CDC48_NECOD (1.6)
ECDC48e7ln0E6 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: CDC48ECOD (1.6)
EVps4_C_Ce7ln0E4 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: Vps4_C_CECOD (1.6)
ECDC48_2e7ln0E5 A: a+b two layersX: Cdc48 domain 2-like (From Topology)H: Cdc48 domain 2-like (From Topology)T: Cdc48 domain 2-likeF: CDC48_2ECOD (1.6)
ESigma54_activate7ln0E1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Sigma54_activatECOD (1.6)
FCDC48_Ne7ln0F3 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: CDC48_NECOD (1.6)
FCDC48e7ln0F6 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: CDC48ECOD (1.6)
FVps4_C_Ce7ln0F4 A: alpha arraysX: Histone-likeH: Histone-relatedT: AAA+ ATPase lid domainF: Vps4_C_CECOD (1.6)
FCDC48_2e7ln0F5 A: a+b two layersX: Cdc48 domain 2-like (From Topology)H: Cdc48 domain 2-like (From Topology)T: Cdc48 domain 2-likeF: CDC48_2ECOD (1.6)
FSigma54_activate7ln0F1 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
PF02933Cell division protein 48 (CDC48), domain 2 (CDC48_2)Cell division protein 48 (CDC48), domain 2This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at t ...This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C-terminus. The VAT-N domain found in AAA ATPases Pfam:PF00004 is a substrate 185-residue recognition domain [1].
Domain
A, B, C, D, E
PF17862AAA+ lid domain (AAA_lid_3)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
PF02359Cell division protein 48 (CDC48), N-terminal domain (CDC48_N)Cell division protein 48 (CDC48), N-terminal domainThis domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at t ...This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases Pfam:PF00004 is a substrate 185-residue recognition domain [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D, E
Transitional endoplasmic reticulum ATPase
Hexa-ubiquitin---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D, E
IPR003959ATPase, AAA-type, coreDomain
A, B, C, D, E
IPR005938AAA ATPase, CDC48 familyFamily
A, B, C, D, E
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
A, B, C, D, E
IPR029067CDC48 domain 2-like superfamilyHomologous Superfamily
A, B, C, D, E
IPR003338CDC48, N-terminal subdomainDomain
A, B, C, D, E
IPR004201CDC48, domain 2Domain
A, B, C, D, E
IPR009010Aspartate decarboxylase-like domain superfamilyHomologous Superfamily
A, B, C, D, E
IPR003593AAA+ ATPase domainDomain
A, B, C, D, E
IPR041569AAA ATPase, AAA+ lid domainDomain
A, B, C, D, E
IPR050168AAA ATPase domain-containing proteinFamily
A, B, C, D, E
IPR003960ATPase, AAA-type, conserved siteConserved Site

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
A, B, C, D, E
PharosP55072