4FFV

Crystal Structure of Dipeptidyl Peptidase IV (DPP4, DPP-IV, CD26) in Complex with 11A19 Fab

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)
A	d4ffva1	All beta proteins	8-bladed beta-propeller	DPP6 N-terminal domain-like	DPP6 N-terminal domain-like	automated matches	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
A	d4ffva2	Alpha and beta proteins (a/b)	alpha/beta-Hydrolases	alpha/beta-Hydrolases	automated matches	automated matches	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d4ffvb1	All beta proteins	8-bladed beta-propeller	DPP6 N-terminal domain-like	DPP6 N-terminal domain-like	automated matches	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d4ffvb2	Alpha and beta proteins (a/b)	alpha/beta-Hydrolases	alpha/beta-Hydrolases	automated matches	automated matches	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
C	d4ffvc2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d4ffvc1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E [auth L]	d4ffvl2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E [auth L]	d4ffvl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d4ffvd_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F [auth H]	d4ffvh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	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	PF00930,PF18811	e4ffvA1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 8-bladed	F: PF00930,PF18811	ECOD (1.6)
A	PF00326	e4ffvA2	A: a/b three-layered sandwiches	X: alpha/beta-Hydrolases (From Topology)	H: alpha/beta-Hydrolases (From Topology)	T: alpha/beta-Hydrolases	F: PF00326	ECOD (1.6)
B	PF00930,PF18811	e4ffvB1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 8-bladed	F: PF00930,PF18811	ECOD (1.6)
B	PF00326	e4ffvB2	A: a/b three-layered sandwiches	X: alpha/beta-Hydrolases (From Topology)	H: alpha/beta-Hydrolases (From Topology)	T: alpha/beta-Hydrolases	F: PF00326	ECOD (1.6)
C	PF07654	e4ffvC2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
C	PF07686	e4ffvC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
E [auth L]	PF07654	e4ffvL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
E [auth L]	PF07686	e4ffvL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
D	PF07654	e4ffvD2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
D	PF07686	e4ffvD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
F [auth H]	PF07654	e4ffvH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
F [auth H]	PF07686	e4ffvH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)
A	2.140.10.30	Mainly Beta	8 Propeller	Methanol Dehydrogenase	Chain A	CATH (4.3.0)
B	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)
B	2.140.10.30	Mainly Beta	8 Propeller	Methanol Dehydrogenase	Chain A	CATH (4.3.0)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
F [auth H]	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, E [auth L]	11A19 FAB	L-KAPPA	Mus musculus (house mouse)	IGKV4-7201, IGKJ101, IGKJ201, IGKC01, IGKC*02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-2C_KAPPA	IMGT (202416-0)
D, F [auth H]	11A19 FAB	VH-CH1	Mus musculus (house mouse)	IGHV1-3901, IGHJ103, IGHG2C01, IGHG2C02, IGHG2C*03	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-2C_KAPPA	IMGT (202416-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C, E [auth L]	Light Chain	IGKV4	Kappa	dipeptidyl peptidase 4	SAbDab (2024-04-26)
D, F [auth H]	Heavy Chain	IGHV1	-	dipeptidyl peptidase 4	SAbDab (2024-04-26)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00930	Dipeptidyl peptidase IV (DPP IV) N-terminal region (DPPIV_N)	Dipeptidyl peptidase IV (DPP IV) N-terminal region	-	Repeat
A, B	PF00326	Prolyl oligopeptidase family (Peptidase_S9)	Prolyl oligopeptidase family	-	Domain
A, B	PF18811	Dipeptidyl peptidase IV (DPP IV) low complexity region (DPPIV_rep)	Dipeptidyl peptidase IV (DPP IV) low complexity region	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Dipeptidyl peptidase 4	protein binding binding virus receptor activity exogenous protein binding peptidase activity catalytic activity, acting on a protein dipeptidyl-peptidase activity hydrolase activity exopeptidase activity catalytic activity signaling receptor binding enzyme binding protease binding serine hydrolase activity protein binding binding virus receptor activity exogenous protein binding peptidase activity catalytic activity, acting on a protein dipeptidyl-peptidase activity hydrolase activity exopeptidase activity catalytic activity signaling receptor binding enzyme binding protease binding serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity endopeptidase activity collagen binding protein-containing complex binding identical protein binding protein homodimerization activity protein dimerization activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity chemorepellent activity receptor ligand activity signaling receptor activator activity peptide binding aminopeptidase activity	lymphocyte mediated immunity regulation of defense response regulation of immune effector process positive regulation of response to biotic stimulus regulation of response to biotic stimulus positive regulation of leukocyte mediated immunity biological process involved in interspecies interaction between organisms response to stimulus regulation of response to external stimulus positive regulation of lymphocyte mediated immunity positive regulation of biological process response to biotic stimulus positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of immune response lymphocyte mediated immunity regulation of defense response regulation of immune effector process positive regulation of response to biotic stimulus regulation of response to biotic stimulus positive regulation of leukocyte mediated immunity biological process involved in interspecies interaction between organisms response to stimulus regulation of response to external stimulus positive regulation of lymphocyte mediated immunity positive regulation of biological process response to biotic stimulus positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of immune response response to stress regulation of response to stress positive regulation of natural killer cell mediated immunity innate immune response leukocyte mediated immunity regulation of immune system process positive regulation of immune effector process response to external biotic stimulus natural killer cell mediated immunity positive regulation of immune system process regulation of biological process regulation of natural killer cell mediated immunity positive regulation of innate immune response immune response response to other organism defense response regulation of innate immune response biological regulation defense response to symbiont response to external stimulus immune effector process regulation of leukocyte mediated immunity regulation of lymphocyte mediated immunity regulation of response to stimulus immune system process defense response to other organism positive regulation of defense response regulation of immune response epithelium migration multicellular organismal process tissue migration endothelial cell migration ameboidal-type cell migration epithelial cell migration cell migration cellular process cell motility adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains T cell mediated immunity regulation of adaptive immune response adaptive immune response regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of T cell mediated immunity cellular response to stimulus negative regulation of locomotion regulation of cell motility regulation of cellular process negative regulation of biological process negative regulation of chemotaxis taxis negative regulation of cell migration chemotaxis regulation of leukocyte chemotaxis regulation of leukocyte migration neutrophil migration granulocyte migration leukocyte migration negative regulation of leukocyte migration regulation of locomotion response to chemical negative regulation of response to external stimulus regulation of neutrophil chemotaxis negative regulation of cell motility regulation of neutrophil migration negative regulation of neutrophil chemotaxis negative regulation of leukocyte chemotaxis neutrophil chemotaxis regulation of granulocyte chemotaxis negative regulation of cellular process regulation of cell migration myeloid leukocyte migration locomotion cell chemotaxis negative regulation of response to stimulus negative regulation of granulocyte chemotaxis regulation of chemotaxis cellular response to chemical stimulus negative regulation of immune system process granulocyte chemotaxis negative regulation of neutrophil migration leukocyte chemotaxis organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process primary metabolic process protein catabolic process macromolecule catabolic process organic substance metabolic process metabolic process protein metabolic process macromolecule metabolic process organic substance catabolic process behavior locomotory behavior exploration behavior locomotory exploration behavior cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation positive regulation of cellular process T cell activation cell activation lymphocyte activation leukocyte activation developmental process cellular developmental process hemopoiesis B cell activation cell development mononuclear cell differentiation mature B cell differentiation lymphocyte differentiation B-1 B cell differentiation B cell differentiation cell differentiation anatomical structure development B-1a B cell differentiation leukocyte differentiation cell adhesion response to decreased oxygen levels response to hypoxia response to oxygen levels response to abiotic stimulus psychomotor behavior motor behavior cell-cell adhesion mediated by integrin regulation of cell adhesion mediated by integrin regulation of cell adhesion regulation of cell-cell adhesion mediated by integrin cell-cell adhesion cell adhesion mediated by integrin regulation of cell-cell adhesion behavioral defense response fear response behavioral fear response multicellular organismal response to stress cellular component disassembly negative regulation of extracellular matrix organization extracellular matrix disassembly regulation of cellular component organization negative regulation of cellular component organization extracellular matrix organization cellular component organization negative regulation of extracellular matrix disassembly cellular component organization or biogenesis regulation of extracellular matrix organization regulation of extracellular matrix disassembly extracellular structure organization external encapsulating structure organization regulation of leukocyte activation regulation of cell activation positive regulation of leukocyte cell-cell adhesion leukocyte cell-cell adhesion positive regulation of cell-cell adhesion positive regulation of lymphocyte activation positive regulation of cell activation positive regulation of leukocyte activation regulation of multicellular organismal process positive regulation of T cell activation positive regulation of cell adhesion regulation of T cell activation lymphocyte costimulation regulation of leukocyte cell-cell adhesion positive regulation of multicellular organismal process T cell costimulation regulation of lymphocyte activation proteolysis	cell-cell junction intercellular canaliculus anchoring junction cell junction cellular anatomical entity cell projection cell leading edge plasma membrane bounded cell projection lamellipodium cell periphery apical part of cell membrane plasma membrane plasma membrane region cell-cell junction intercellular canaliculus anchoring junction cell junction cellular anatomical entity cell projection cell leading edge plasma membrane bounded cell projection lamellipodium cell periphery apical part of cell membrane plasma membrane plasma membrane region apical plasma membrane cell surface membrane microdomain membrane raft membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle endocytic vesicle leading edge membrane lamellipodium membrane cell projection membrane extracellular region
C, E [auth L]	11A19 Fab light chain	-	-	-
D, F [auth H]	11A19 Fab heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001375	Peptidase S9, prolyl oligopeptidase, catalytic domain	Domain
A, B	IPR040522	Dipeptidyl peptidase 4, low complexity region	Domain
A, B	IPR029058	Alpha/Beta hydrolase fold	Homologous Superfamily
A, B	IPR002471	Peptidase S9, serine active site	Active Site
A, B	IPR002469	Dipeptidylpeptidase IV, N-terminal domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.