6C5K | pdb_00006c5k

S25-23 Fab in complex with Chlamydiaceae LPS (Crystal form 2)

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth B]	d6c5kb1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ], (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D [auth B]	d6c5kb2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ], (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth L]	d6c5kl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ], (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth L]	d6c5kl2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ], (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A [auth H]	d6c5kh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ], (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B [auth A]	d6c5ka_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ], (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)
D [auth B]	UT	e6c5kB1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: UT	ECOD (v294.1)
C [auth L]	UT	e6c5kL1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: UT	ECOD (v294.1)
A [auth H]	UT	e6c5kH1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: UT	ECOD (v294.1)
B [auth A]	UT	e6c5kA1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: UT	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth B]	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)
A [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B [auth A]	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
C [auth L], D [auth B]	Fab S25-23	L-KAPPA	Mus musculus (house mouse)	IGKV1-11701, IGKJ201, IGKC01, IGKC02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202613-0)
A [auth H], B [auth A]	Fab S25-23	VH-CH1	Mus musculus (house mouse)	IGHV2-202, IGHV2-203, IGHJ301, IGHG102	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202613-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C [auth L], D [auth B]	Light Chain	IGKV1	Kappa	polysaccharide	SAbDab (2026-04-10)
A [auth H], B [auth A]	Heavy Chain	IGHV2	-	polysaccharide	SAbDab (2026-04-10)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth L], D [auth B]	IgG1 Fab Light Chain (Kappa)	-	response to stimulus immune response immune system process adaptive immune response	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex immunoglobulin complex extracellular region
A [auth H], B [auth A]	IgG1 Fab Heavy Chain	cation binding ion binding binding metal ion binding small molecule binding	response to stimulus immune response immune system process adaptive immune response	protein-containing complex immunoglobulin complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth L], D [auth B]	IPR003597	Immunoglobulin C1-set	Domain
C [auth L], D [auth B]	IPR050150	Immunoglobulin Variable Light Chain	Family
C [auth L], D [auth B]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
C [auth L], D [auth B]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
C [auth L], D [auth B]	IPR013106	Immunoglobulin V-set domain	Domain
C [auth L], D [auth B]	IPR003599	Immunoglobulin domain subtype	Domain
C [auth L], D [auth B]	IPR007110	Immunoglobulin-like domain	Domain
C [auth L], D [auth B]	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
A [auth H], B [auth A]	IPR003597	Immunoglobulin C1-set	Domain
A [auth H], B [auth A]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A [auth H], B [auth A]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A [auth H], B [auth A]	IPR013106	Immunoglobulin V-set domain	Domain
A [auth H], B [auth A]	IPR003599	Immunoglobulin domain subtype	Domain
A [auth H], B [auth A]	IPR007110	Immunoglobulin-like domain	Domain
A [auth H], B [auth A]	IPR050380	Immune Recognition and Response Modulators	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A [auth H], B [auth A]	PCA	Parent Component: GLN RESID: AA0031 PSI-MOD : 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420

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.