6TNP | pdb_00006tnp

Crystal structure of the ScFv-5E5 in complex with a Tn glycopeptide

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
IMGT Antibody Annotation
SAbDab Antibody Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
K	d6tnpk1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
K	d6tnpk2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
I	d6tnpi1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
I	d6tnpi2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
H	d6tnph1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
H	d6tnph2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F	d6tnpf1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F	d6tnpf2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d6tnpd1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d6tnpd2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d6tnpb1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d6tnpb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
L	d6tnpl_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
J	d6tnpj_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
G	d6tnpg_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E	d6tnpe_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d6tnpc_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d6tnpa_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	house mouse (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)
K	Big_1	e6tnpK1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
I	Big_1	e6tnpI1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
H	Big_1	e6tnpH1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
F	Big_1	e6tnpF1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
D	Big_1	e6tnpD1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
B	Big_1	e6tnpB1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
L	Big_1	e6tnpL1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
J	Big_1	e6tnpJ1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
G	Big_1	e6tnpG1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
E	Big_1	e6tnpE1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
C	Big_1	e6tnpC1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)
A	Big_1	e6tnpA1	A: alpha bundles	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Big_1	ECOD (develop294)

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, D, F, H, I B, D, F, H, I, K	scFv 5E5	VH	Mus musculus (house mouse)	IGHV1S5301, IGHV1S5302, IGHJ2*01	V-DOMAIN VH	IG	FV-HEAVY_KAPPA	IMGT (202610-0)
A, C, E, G, J A, C, E, G, J, L	scFv 5E5	V-KAPPA	Mus musculus (house mouse)	IGKV8-1901, IGKJ501	V-DOMAIN V-KAPPA	IG	FV-HEAVY_KAPPA	IMGT (202610-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B, D, F, H, I B, D, F, H, I, K	Heavy Chain	IGHV1	-	-	SAbDab (2026-03-20)
A, C, E, G, J A, C, E, G, J, L	Light Chain	IGKV8	Kappa	-	SAbDab (2026-03-20)

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.