3CFK | pdb_00003cfk

Crystal structure of catalytic elimination antibody 34E4, triclinic crystal form


Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Pd3cfkp1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin heavy chain variable domain, VH mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Pd3cfkp2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Nd3cfkn1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin heavy chain variable domain, VH mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Nd3cfkn2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
L [auth K]d3cfkk1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin heavy chain variable domain, VH mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
L [auth K]d3cfkk2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
J [auth I]d3cfki1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin heavy chain variable domain, VH mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
J [auth I]d3cfki2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
H [auth F]d3cfkf1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin heavy chain variable domain, VH mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
H [auth F]d3cfkf2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
F [auth D]d3cfkd1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin heavy chain variable domain, VH mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
F [auth D]d3cfkd2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
D [auth B]d3cfkb1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin heavy chain variable domain, VH mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
D [auth B]d3cfkb2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
B [auth H]d3cfkh1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin heavy chain variable domain, VH mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
B [auth H]d3cfkh2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Od3cfko1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin light chain kappa variable domain, VL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Od3cfko2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin light chain kappa constant domain, CL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Md3cfkm1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin light chain kappa variable domain, VL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Md3cfkm2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin light chain kappa constant domain, CL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
K [auth J]d3cfkj1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin light chain kappa variable domain, VL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
K [auth J]d3cfkj2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin light chain kappa constant domain, CL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
I [auth G]d3cfkg1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin light chain kappa variable domain, VL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
I [auth G]d3cfkg2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin light chain kappa constant domain, CL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
G [auth E]d3cfke1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin light chain kappa variable domain, VL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
G [auth E]d3cfke2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin light chain kappa constant domain, CL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
E [auth C]d3cfkc1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin light chain kappa variable domain, VL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
E [auth C]d3cfkc2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin light chain kappa constant domain, CL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
C [auth A]d3cfka1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin light chain kappa variable domain, VL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
C [auth A]d3cfka2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin light chain kappa constant domain, CL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
A [auth L]d3cfkl1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin light chain kappa variable domain, VL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
A [auth L]d3cfkl2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) Immunoglobulin light chain kappa constant domain, CL-kappa mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
PSCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8091519 3000071 SCOP2B (2022-06-29)
NSCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8091519 3000071 SCOP2B (2022-06-29)
L [auth K]SCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8091519 3000071 SCOP2B (2022-06-29)
J [auth I]SCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8091519 3000071 SCOP2B (2022-06-29)
H [auth F]SCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8091519 3000071 SCOP2B (2022-06-29)
F [auth D]SCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8091519 3000071 SCOP2B (2022-06-29)
D [auth B]SCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8091519 3000071 SCOP2B (2022-06-29)
B [auth H]SCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8091519 3000071 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
PCopper-binde3cfkP1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
NCopper-binde3cfkN1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
L [auth K]Copper-binde3cfkK1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
J [auth I]Copper-binde3cfkI1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
H [auth F]Copper-binde3cfkF1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
F [auth D]Copper-binde3cfkD1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
D [auth B]Copper-binde3cfkB1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
B [auth H]Copper-binde3cfkH1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
OCopper-binde3cfkO1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
MCopper-binde3cfkM1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
K [auth J]Copper-binde3cfkJ1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
I [auth G]Copper-binde3cfkG1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
G [auth E]Copper-binde3cfkE1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
E [auth C]Copper-binde3cfkC1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
C [auth A]Copper-binde3cfkA1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)
A [auth L]Copper-binde3cfkL1 A: a/b three-layered sandwichesX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
34E4 Fab VH-CH1 Chimeric (chimeric) IGHV4-1*02, IGHJ4*01, IGHG1*01, IGHG1*02, IGHG1*04, IGHG1*05 V-DOMAIN VH, C-DOMAIN CH1 IG FAB-GAMMA-1_V-LAMBDA-C-KAPPA IMGT (202611-0)
34E4 Fab V-LAMBDA-C-KAPPA Chimeric (chimeric) IGLV1*01, IGKJ1*01, IGKJ2*01, IGKC*01 V-DOMAIN V-LAMBDA, C-DOMAIN C-KAPPA IG FAB-GAMMA-1_V-LAMBDA-C-KAPPA IMGT (202611-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
Heavy ChainIGHV4 -2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOLSAbDab (2026-03-27)
Light ChainIGLV1 Lambda2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOLSAbDab (2026-03-27)

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
CATALYTIC ANTIBODY FAB 34E4 HEAVY CHAIN,Uncharacterized protein
CATALYTIC ANTIBODY FAB 34E4 LIGHT CHAIN,Uncharacterized protein

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
IPR050380Immune Recognition and Response ModulatorsFamily
IPR003597Immunoglobulin C1-setDomain
IPR013783Immunoglobulin-like foldHomologous Superfamily
IPR007110Immunoglobulin-like domainDomain
IPR003006Immunoglobulin/major histocompatibility complex, conserved siteConserved Site
IPR050150Immunoglobulin Variable Light ChainFamily
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
IPR003597Immunoglobulin C1-setDomain
IPR013783Immunoglobulin-like foldHomologous Superfamily
IPR013106Immunoglobulin V-set domainDomain
IPR003599Immunoglobulin domain subtypeDomain
IPR007110Immunoglobulin-like domainDomain
IPR003006Immunoglobulin/major histocompatibility complex, conserved siteConserved Site