Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
E [auth C]SCOP2 FamilyPDEase-like8067452 4001423 SCOP2 (2021-05-27)
E [auth C]SCOP2 SuperfamilyHD-domain/PDEase-like8067453 3000943 SCOP2 (2021-05-27)
G [auth O]SCOP2B SuperfamilyHD-domain/PDEase-like8067453 3000943 SCOP2B (2021-05-27)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
APF01590e3jabA1 A: a+b three layersX: Profilin-likeH: sensor domains (From Topology)T: sensor domainsF: PF01590ECOD (1.6)
B [auth M]PF01590e3jabM1 A: a+b three layersX: Profilin-likeH: sensor domains (From Topology)T: sensor domainsF: PF01590ECOD (1.6)
C [auth B]PF01590e3jabB1 A: a+b three layersX: Profilin-likeH: sensor domains (From Topology)T: sensor domainsF: PF01590ECOD (1.6)
D [auth N]PF01590e3jabN1 A: a+b three layersX: Profilin-likeH: sensor domains (From Topology)T: sensor domainsF: PF01590ECOD (1.6)
E [auth C]PF00233e3jabC1 A: alpha complex topologyX: PDEase-likeH: HD-domain/PDEase-like (From Topology)T: HD-domain/PDEase-likeF: PF00233ECOD (1.6)
G [auth O]PF00233e3jabO1 A: alpha complex topologyX: PDEase-likeH: HD-domain/PDEase-like (From Topology)T: HD-domain/PDEase-likeF: PF00233ECOD (1.6)
K [auth R]PF07654e3jabR2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07654ECOD (1.6)
K [auth R]PF07686e3jabR1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
I [auth L]PF07654e3jabL1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07654ECOD (1.6)
I [auth L]PF07686e3jabL2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
J [auth H]PF07654e3jabH2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07654ECOD (1.6)
J [auth H]PF07686e3jabH1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
L [auth Q]PF07654e3jabQ2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07654ECOD (1.6)
L [auth Q]PF07686e3jabQ1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
I [auth L],
K [auth R]
2E8 Fab L-KAPPA Mus musculus (house mouse) IGKV6-13*01, IGKJ5*01, IGKC*01, IGKC*02 V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA IG FAB-GAMMA-1_KAPPA IMGT (202423-0)
J [auth H],
L [auth Q]
2E8 Fab VH-CH1 Mus musculus (house mouse) IGHV14-4*02, IGHJ3*01, IGHG1*02 V-DOMAIN VH, C-DOMAIN CH1 IG FAB-GAMMA-1_KAPPA IMGT (202423-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
I [auth L],
K [auth R]
Light ChainIGKV6 Kappaphosphodiesterase 5/6 chimera catalytic domainSAbDab (2024-06-14)
J [auth H],
L [auth Q]
Heavy ChainIGHV14 -phosphodiesterase 5/6 chimera catalytic domainSAbDab (2024-06-14)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A,
B [auth M]
PF01590GAF domain (GAF)GAF domainThis domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl cyclases, phytochromes, FhlA and NifA. Adenylyl and guanylyl cyclases catalyse ATP and GTP to the second messengers cAMP and cGMP, respectively, these products up-regul ...This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl cyclases, phytochromes, FhlA and NifA. Adenylyl and guanylyl cyclases catalyse ATP and GTP to the second messengers cAMP and cGMP, respectively, these products up-regulating catalytic activity by binding to the regulatory GAF domain(s). The opposite hydrolysis reaction is catalysed by phosphodiesterase. cGMP-dependent 3',5'-cyclic phosphodiesterase catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. Here too, cGMP regulates catalytic activity by GAF-domain binding. Phytochromes are regulatory photoreceptors in plants and bacteria which exist in two thermally-stable states that are reversibly inter-convertible by light: the Pr state absorbs maximally in the red region of the spectrum, while the Pfr state absorbs maximally in the far-red region. This domain is also found in FhlA (formate hydrogen lyase transcriptional activator) and NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54. This domain can bind biliverdine and phycocyanobilin (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Domain
C [auth B],
D [auth N]
PF01590GAF domain (GAF)GAF domainThis domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl cyclases, phytochromes, FhlA and NifA. Adenylyl and guanylyl cyclases catalyse ATP and GTP to the second messengers cAMP and cGMP, respectively, these products up-regul ...This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl cyclases, phytochromes, FhlA and NifA. Adenylyl and guanylyl cyclases catalyse ATP and GTP to the second messengers cAMP and cGMP, respectively, these products up-regulating catalytic activity by binding to the regulatory GAF domain(s). The opposite hydrolysis reaction is catalysed by phosphodiesterase. cGMP-dependent 3',5'-cyclic phosphodiesterase catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. Here too, cGMP regulates catalytic activity by GAF-domain binding. Phytochromes are regulatory photoreceptors in plants and bacteria which exist in two thermally-stable states that are reversibly inter-convertible by light: the Pr state absorbs maximally in the red region of the spectrum, while the Pfr state absorbs maximally in the far-red region. This domain is also found in FhlA (formate hydrogen lyase transcriptional activator) and NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54. This domain can bind biliverdine and phycocyanobilin (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Domain
E [auth C],
G [auth O]
PF002333'5'-cyclic nucleotide phosphodiesterase (PDEase_I)3'5'-cyclic nucleotide phosphodiesterase- Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A,
B [auth M]
GafA domain of cone phosphodiesterase 6C- - -
C [auth B],
D [auth N]
GafB domain of phosphodiesterase 2A
E [auth C],
G [auth O]
phosphodiesterase 5/6 chimera catalytic domain
F [auth D],
H [auth P]
phosphodiesterase 6 gamma subunit inhibitory peptide
I [auth L],
K [auth R]
IgG1-kappa 2E8 light chain---
J [auth H],
L [auth Q]
IgG1-kappa 2E8 heavy chain---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A,
B [auth M]
IPR003018GAF domainDomain
A,
B [auth M]
IPR029016GAF-like domain superfamilyHomologous Superfamily
C [auth B],
D [auth N]
IPR0369713'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamilyHomologous Superfamily
C [auth B],
D [auth N]
IPR003018GAF domainDomain
C [auth B],
D [auth N]
IPR0231743'5'-cyclic nucleotide phosphodiesterase, conserved siteConserved Site
C [auth B],
D [auth N]
IPR003607HD/PDEase domainDomain
C [auth B],
D [auth N]
IPR0020733'5'-cyclic nucleotide phosphodiesterase, catalytic domainDomain
C [auth B],
D [auth N]
IPR029016GAF-like domain superfamilyHomologous Superfamily
C [auth B],
D [auth N]
IPR0230883'5'-cyclic nucleotide phosphodiesteraseFamily
E [auth C],
G [auth O]
IPR003607HD/PDEase domainDomain
E [auth C],
G [auth O]
IPR0020733'5'-cyclic nucleotide phosphodiesterase, catalytic domainDomain
E [auth C],
G [auth O]
IPR0369713'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamilyHomologous Superfamily
E [auth C],
G [auth O]
IPR003018GAF domainDomain
E [auth C],
G [auth O]
IPR029016GAF-like domain superfamilyHomologous Superfamily
E [auth C],
G [auth O]
IPR0230883'5'-cyclic nucleotide phosphodiesteraseFamily
E [auth C],
G [auth O]
IPR0231743'5'-cyclic nucleotide phosphodiesterase, conserved siteConserved Site
E [auth C],
G [auth O]
IPR003607HD/PDEase domainDomain
E [auth C],
G [auth O]
IPR0020733'5'-cyclic nucleotide phosphodiesterase, catalytic domainDomain
E [auth C],
G [auth O]
IPR0369713'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamilyHomologous Superfamily
E [auth C],
G [auth O]
IPR003018GAF domainDomain
E [auth C],
G [auth O]
IPR029016GAF-like domain superfamilyHomologous Superfamily
E [auth C],
G [auth O]
IPR0230883'5'-cyclic nucleotide phosphodiesteraseFamily
E [auth C],
G [auth O]
IPR0231743'5'-cyclic nucleotide phosphodiesterase, conserved siteConserved Site
F [auth D],
H [auth P]
IPR006952Retinal cGMP phosphodiesterase, gamma subunitFamily
F [auth D],
H [auth P]
IPR037030Retinal cGMP phosphodiesterase, gamma subunit superfamilyHomologous Superfamily