Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
C [auth B]SCOP2B SuperfamilyHD-domain/PDEase-like8067453 3000943 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyHD-domain/PDEase-like8067453 3000943 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
A [auth L]PF07654e3jbqL2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07654ECOD (1.6)
A [auth L]PF07686e3jbqL1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
I [auth l]PF07654e3jbql1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07654ECOD (1.6)
I [auth l]PF07686e3jbql2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
B [auth H]PF07654e3jbqH1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07654ECOD (1.6)
B [auth H]PF07686e3jbqH2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
J [auth h]PF07654e3jbqh1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07654ECOD (1.6)
J [auth h]PF07686e3jbqh2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
C [auth B]PF00233e3jbqB1 A: alpha complex topologyX: PDEase-likeH: HD-domain/PDEase-like (From Topology)T: HD-domain/PDEase-likeF: PF00233ECOD (1.6)
FPF00233e3jbqF1 A: alpha complex topologyX: PDEase-likeH: HD-domain/PDEase-like (From Topology)T: HD-domain/PDEase-likeF: PF00233ECOD (1.6)
E [auth C]PF01590e3jbqC1 A: a+b three layersX: Profilin-likeH: sensor domains (From Topology)T: sensor domainsF: PF01590ECOD (1.6)
H [auth G]PF01590e3jbqG1 A: a+b three layersX: Profilin-likeH: sensor domains (From Topology)T: sensor domainsF: PF01590ECOD (1.6)
K [auth 1]PF01590e3jbq11 A: a+b three layersX: Profilin-likeH: sensor domains (From Topology)T: sensor domainsF: PF01590ECOD (1.6)
L [auth 2]PF01590e3jbq21 A: a+b three layersX: Profilin-likeH: sensor domains (From Topology)T: sensor domainsF: PF01590ECOD (1.6)

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
A [auth L],
I [auth l]
Fab 2E8 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 (202422-0)
B [auth H],
J [auth h]
Fab 2E8 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 (202422-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
A [auth L],
I [auth l]
Light ChainIGKV6 Kappaphosphodiesterase 5/6 chimera catalytic domainSAbDab (2024-06-07)
B [auth H],
J [auth h]
Heavy ChainIGHV14 -phosphodiesterase 5/6 chimera catalytic domainSAbDab (2024-06-07)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
C [auth B],
F
PF002333'5'-cyclic nucleotide phosphodiesterase (PDEase_I)3'5'-cyclic nucleotide phosphodiesterase- Domain
E [auth C],
H [auth G]
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
K [auth 1],
L [auth 2]
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth L],
I [auth l]
IgG1-kappa 2E8 light chain---
B [auth H],
J [auth h]
IgG1-kappa 2E8 heavy chain---
C [auth B],
F
phosphodiesterase 5/6 chimera catalytic domain
D,
G [auth X]
phosphodiesterase 6 gamma subunit inhibitory peptide
E [auth C],
H [auth G]
GafB domain of phosphodiesterase 2A
K [auth 1],
L [auth 2]
GafA domain of cone phosphodiesterase 6C

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
C [auth B],
F
IPR003607HD/PDEase domainDomain
C [auth B],
F
IPR0020733'5'-cyclic nucleotide phosphodiesterase, catalytic domainDomain
C [auth B],
F
IPR0369713'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamilyHomologous Superfamily
C [auth B],
F
IPR003018GAF domainDomain
C [auth B],
F
IPR029016GAF-like domain superfamilyHomologous Superfamily
C [auth B],
F
IPR0230883'5'-cyclic nucleotide phosphodiesteraseFamily
C [auth B],
F
IPR0231743'5'-cyclic nucleotide phosphodiesterase, conserved siteConserved Site
C [auth B],
F
IPR003607HD/PDEase domainDomain
C [auth B],
F
IPR0020733'5'-cyclic nucleotide phosphodiesterase, catalytic domainDomain
C [auth B],
F
IPR0369713'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamilyHomologous Superfamily
C [auth B],
F
IPR003018GAF domainDomain
C [auth B],
F
IPR029016GAF-like domain superfamilyHomologous Superfamily
C [auth B],
F
IPR0230883'5'-cyclic nucleotide phosphodiesteraseFamily
C [auth B],
F
IPR0231743'5'-cyclic nucleotide phosphodiesterase, conserved siteConserved Site
D,
G [auth X]
IPR006952Retinal cGMP phosphodiesterase, gamma subunitFamily
D,
G [auth X]
IPR037030Retinal cGMP phosphodiesterase, gamma subunit superfamilyHomologous Superfamily
E [auth C],
H [auth G]
IPR0369713'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamilyHomologous Superfamily
E [auth C],
H [auth G]
IPR003018GAF domainDomain
E [auth C],
H [auth G]
IPR0231743'5'-cyclic nucleotide phosphodiesterase, conserved siteConserved Site
E [auth C],
H [auth G]
IPR003607HD/PDEase domainDomain
E [auth C],
H [auth G]
IPR0020733'5'-cyclic nucleotide phosphodiesterase, catalytic domainDomain
E [auth C],
H [auth G]
IPR029016GAF-like domain superfamilyHomologous Superfamily
E [auth C],
H [auth G]
IPR0230883'5'-cyclic nucleotide phosphodiesteraseFamily
K [auth 1],
L [auth 2]
IPR003607HD/PDEase domainDomain
K [auth 1],
L [auth 2]
IPR0020733'5'-cyclic nucleotide phosphodiesterase, catalytic domainDomain
K [auth 1],
L [auth 2]
IPR0369713'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamilyHomologous Superfamily
K [auth 1],
L [auth 2]
IPR003018GAF domainDomain
K [auth 1],
L [auth 2]
IPR029016GAF-like domain superfamilyHomologous Superfamily
K [auth 1],
L [auth 2]
IPR0230883'5'-cyclic nucleotide phosphodiesteraseFamily
K [auth 1],
L [auth 2]
IPR0231743'5'-cyclic nucleotide phosphodiesterase, conserved siteConserved Site