4M1C | pdb_00004m1c

Crystal Structure Analysis of Fab-Bound Human Insulin Degrading Enzyme (IDE) in Complex with Amyloid-Beta (1-40)


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
Fe4m1cF1 A: a/b three-layered sandwichesX: avirulence protein AvrPiz-t homologsH: avirulence protein AvrPiz-t homologsT: avirulence protein AvrPiz-t homologsF:ECOD (v294.1)
De4m1cD1 A: a/b three-layered sandwichesX: avirulence protein AvrPiz-t homologsH: avirulence protein AvrPiz-t homologsT: avirulence protein AvrPiz-t homologsF:ECOD (v294.1)
Ee4m1cE1 A: a/b three-layered sandwichesX: avirulence protein AvrPiz-t homologsH: avirulence protein AvrPiz-t homologsT: avirulence protein AvrPiz-t homologsF:ECOD (v294.1)
Ce4m1cC1 A: a/b three-layered sandwichesX: avirulence protein AvrPiz-t homologsH: avirulence protein AvrPiz-t homologsT: avirulence protein AvrPiz-t homologsF:ECOD (v294.1)
Be4m1cB1 A: a/b three-layered sandwichesX: avirulence protein AvrPiz-t homologsH: avirulence protein AvrPiz-t homologsT: avirulence protein AvrPiz-t homologsF:ECOD (v294.1)
Ae4m1cA1 A: a/b three-layered sandwichesX: avirulence protein AvrPiz-t homologsH: avirulence protein AvrPiz-t homologsT: avirulence protein AvrPiz-t homologsF:ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
F2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
D2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
E2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
C2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
B3.30.830.10 Alpha Beta 2-Layer Sandwich Cytochrome Bc1 Complex Chain A, domain 1CATH (4.3.0)
A3.30.830.10 Alpha Beta 2-Layer Sandwich Cytochrome Bc1 Complex Chain A, domain 1CATH (4.3.0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
D, F
Light ChainIGKV1 Kappainsulin-degrading enzymeSAbDab (2026-03-27)
C, E
Heavy ChainIGHV3 -insulin-degrading enzymeSAbDab (2026-03-27)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
G, H
PF03494Beta-amyloid peptide (beta-APP) (Beta-APP)Beta-amyloid peptide (beta-APP)- Family
A, B
PF05193Peptidase M16 inactive domain (Peptidase_M16_C)Peptidase M16 inactive domainPeptidase M16 consists of two structurally related domains. One is the active peptidase, whereas the other is inactive. The two domains hold the substrate like a clamp [1]. Domain
A, B
PF16187Middle or third domain of peptidase_M16 (Peptidase_M16_M)Middle or third domain of peptidase_M16- Family
A, B
PF00675Insulinase (Peptidase family M16) (Peptidase_M16)Insulinase (Peptidase family M16)- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
G, H
Amyloid beta A4 protein
D, F
Fab-bound IDE, light chain---
C, E
Fab-bound IDE, heavy chain---
A, B
Insulin-degrading enzyme

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
G, H
IPR013803Amyloidogenic glycoprotein, amyloid-beta peptideDomain
G, H
IPR008154Amyloidogenic glycoprotein, extracellularDomain
G, H
IPR036176E2 domain superfamilyHomologous Superfamily
G, H
IPR024329Amyloidogenic glycoprotein, E2 domainDomain
G, H
IPR036669Amyloidogenic glycoprotein, copper-binding domain superfamilyHomologous Superfamily
G, H
IPR019745Amyloidogenic glycoprotein, intracellular domain, conserved siteConserved Site
G, H
IPR011178Amyloidogenic glycoprotein, copper-bindingDomain
G, H
IPR037071Amyloidogenic glycoprotein, amyloid-beta peptide superfamilyHomologous Superfamily
G, H
IPR020901Proteinase inhibitor I2, Kunitz, conserved siteConserved Site
G, H
IPR019744Amyloidogenic glycoprotein, copper-binding domain conserved siteConserved Site
G, H
IPR002223Pancreatic trypsin inhibitor Kunitz domainDomain
G, H
IPR015849Amyloidogenic glycoprotein, heparin-bindingDomain
G, H
IPR036454Amyloidogenic glycoprotein, heparin-binding domain superfamilyHomologous Superfamily
G, H
IPR011993PH-like domain superfamilyHomologous Superfamily
G, H
IPR019543Beta-amyloid precursor protein C-terminalDomain
G, H
IPR036880Pancreatic trypsin inhibitor Kunitz domain superfamilyHomologous Superfamily
G, H
IPR008155Amyloidogenic glycoproteinFamily
A, B
IPR011249Metalloenzyme, LuxS/M16 peptidase-likeHomologous Superfamily
A, B
IPR001431Peptidase M16, zinc-binding siteBinding Site
A, B
IPR007863Peptidase M16, C-terminalDomain
A, B
IPR054734Coenzyme PQQ synthesis protein F-like, C-terminal lobe, domain 4Domain
A, B
IPR011765Peptidase M16, N-terminalDomain
A, B
IPR050626Peptidase M16Family
A, B
IPR032632Peptidase M16, middle/third domainDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
G, H
PharosP05067
A, B
PharosP14735