Annotations: 3WKM

The periplasmic PDZ tandem fragment of the RseP homologue from Aquifex aeolicus in complex with the Fab fragment

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B [auth H]	d3wkmh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E [auth I]	d3wkmi_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth L]	d3wkml1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F [auth M]	d3wkmm1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	SidM_Rab1-act	e3wkmA2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: SidM_Rab1-act	ECOD (v294.1)
D [auth B]	SidM_Rab1-act	e3wkmB2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: SidM_Rab1-act	ECOD (v294.1)
B [auth H]	Ribosomal_L28	e3wkmH1	A: a/b three-layered sandwiches	X: dsRBD-like	H: Peptidyl-tRNA hydrolase domain-like	T: Peptidyl-tRNA hydrolase domain-like	F: Ribosomal_L28	ECOD (v294.1)
E [auth I]		e3wkmI1	A: a/b three-layered sandwiches	X: Thioredoxin-like	H: Thioredoxin-like	T: Thioredoxin-like	F:	ECOD (v294.1)
C [auth L]	Ribosomal_L28	e3wkmL1	A: a/b three-layered sandwiches	X: dsRBD-like	H: Peptidyl-tRNA hydrolase domain-like	T: Peptidyl-tRNA hydrolase domain-like	F: Ribosomal_L28	ECOD (v294.1)
F [auth M]	Ribosomal_L28	e3wkmM1	A: a/b three-layered sandwiches	X: dsRBD-like	H: Peptidyl-tRNA hydrolase domain-like	T: Peptidyl-tRNA hydrolase domain-like	F: Ribosomal_L28	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
D [auth B]	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
B [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
F [auth M]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
B [auth H], E [auth I]	MOUSE IGG1-KAPPA FAB	VH-CH1	Mus musculus (house mouse)	IGHV14-302, IGHJ401, IGHG1*02	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202615-0)
C [auth L], F [auth M]	MOUSE IGG1-KAPPA FAB	L-KAPPA	Mus musculus (house mouse)	IGKV3-1001, IGKJ101, IGKJ102, IGKC01, IGKC*02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202615-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H], E [auth I]	Heavy Chain	IGHV14	-	putative zinc metalloprotease aq_1964	SAbDab (2026-04-24)
C [auth L], F [auth M]	Light Chain	IGKV3	Kappa	putative zinc metalloprotease aq_1964	SAbDab (2026-04-24)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D [auth B]	PF02163	Peptidase family M50 (Peptidase_M50)	Peptidase family M50	-	Family
A, D [auth B]	PF17820	PDZ domain (PDZ_6)	PDZ domain	This entry represents the PDZ domain from a wide variety of proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D [auth B]	Putative zinc metalloprotease aq_1964	peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity endopeptidase activity cation binding ion binding binding metal ion binding small molecule binding metalloendopeptidase activity metallopeptidase activity	proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process	cell periphery cellular anatomical structure plasma membrane membrane
B [auth H], E [auth I]	MOUSE IGG1-KAPPA FAB (HEAVY CHAIN)	-	-	-
C [auth L], F [auth M]	MOUSE IGG1-KAPPA FAB (LIGHT CHAIN)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D [auth B]	IPR004387	Peptidase M50, putative membrane-associated zinc metallopeptidase	Family
A, D [auth B]	IPR041489	PDZ domain 6	Domain
A, D [auth B]	IPR008915	Peptidase M50	Domain
A, D [auth B]	IPR001478	PDZ domain	Domain
A, D [auth B]	IPR036034	PDZ superfamily	Homologous Superfamily

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.