3J4Q | pdb_00003j4q

Pseudo-atomic model of the AKAP18-PKA complex in a bent conformation derived from electron microscopy


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ESCOP2B SuperfamilyProtein kinase-like (PK-like) 8040503 3000066 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyProtein kinase-like (PK-like) 8040503 3000066 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyAKAP7 anchor domain-like 8053821 3002232 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyLigT-like 8053823 3001408 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
ESigma70_r2,Sigma70_nere3j4qE1 A: alpha bundlesX: TIM beta/alpha-barrelH: TIM barrelsT: TIM barrelsF: Sigma70_r2,Sigma70_nerECOD (develop294)
DSigma70_r2,Sigma70_nere3j4qD1 A: alpha bundlesX: TIM beta/alpha-barrelH: TIM barrelsT: TIM barrelsF: Sigma70_r2,Sigma70_nerECOD (develop294)
CGlyco_hydro_35e3j4qC1 A: alpha bundlesX: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunitH: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunitT: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunitF: Glyco_hydro_35ECOD (develop294)
BcNMP_bindinge3j4qB1 A: alpha bundlesX: Alpha-beta plaitsH: RNA-binding domain, RBDT: RNA-binding domain, RBDF: cNMP_bindingECOD (develop294)
AcNMP_bindinge3j4qA1 A: alpha bundlesX: Alpha-beta plaitsH: RNA-binding domain, RBDT: RNA-binding domain, RBDF: cNMP_bindingECOD (develop294)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D, E
PF00069Protein kinase domain (Pkinase)Protein kinase domainDomain
B, C
PF00027Cyclic nucleotide-binding domain (cNMP_binding)Cyclic nucleotide-binding domainThis domain sensor domain can bind cAMP, cGMP, c-di-GMP, oxygen and 2-oxoglutarate (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). Domain
PF10470PKA-RI-RII subunit binding domain of A-kinase anchor protein (AKAP7_RIRII_bdg)PKA-RI-RII subunit binding domain of A-kinase anchor proteinAKAP7_RIRII_bdg is the C-terminal domain of the cyclic AMP-dependent protein kinase A, PKA, anchor protein AKAP7. This protein anchors PKA, for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes, by binding to it ...AKAP7_RIRII_bdg is the C-terminal domain of the cyclic AMP-dependent protein kinase A, PKA, anchor protein AKAP7. This protein anchors PKA, for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes, by binding to its regulatory subunits, RI and RII, hence being known as a dual-specific AKAP [1]. The 25 crucial amino acids of RII-binding domains in general form structurally conserved amphipathic helices with unrelated sequences; hydrophobic amino acid residues form the backbone of the interaction and hydrogen bond- and salt-bridge-forming amino acid residues increase the affinity of the interaction [2]. The N-terminus, of family AKAP7_NLS, carries the nuclear localisation signal.
Domain
PF10469AKAP7 2'5' RNA ligase-like domain (AKAP7_NLS)AKAP7 2'5' RNA ligase-like domainAKAP7_NLS is the N-terminal domain of the cyclic AMP-dependent protein kinase A, PKA, anchor protein AKAP7. This protein anchors PKA for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes [1]. AKAP7_NLS carries t ...AKAP7_NLS is the N-terminal domain of the cyclic AMP-dependent protein kinase A, PKA, anchor protein AKAP7. This protein anchors PKA for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes [1]. AKAP7_NLS carries the nuclear localisation signal (NLS) KKRKK, that indicates the cellular destiny of this anchor protein [2]. Binding to the regulatory subunits RI and RII of PKA is mediated via the family AKAP7_RIRII_bdg. at the C-terminus. This family represents a region that contains two 2'5' RNA ligase like domains Pfam:PF02834. Presumably this domain carried out some as yet unknown enzymatic function.
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
D, E
cAMP-dependent protein kinase catalytic subunit alpha
B, C
cAMP-dependent protein kinase type II-alpha regulatory subunit
A-kinase anchor protein 18