7CQC

The NZ-1 Fab complexed with the PDZ tandem fragment of A. aeolicus S2P homolog with the PA14 tag inserted between the residues 181 and 184

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth H]	d7cqch_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Norway rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B [auth L]	d7cqcl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Norway rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C [auth A]	PDZ_2	e7cqcA1	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
A [auth H]	C1-set_1	e7cqcH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
A [auth H]	V-set_10	e7cqcH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_10	ECOD (1.6)
B [auth L]	C1-set_1	e7cqcL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
B [auth L]	V-set_3	e7cqcL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_3	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A [auth H]	Heavy Chain	IGHV5	-	putative zinc metalloprotease aq_1964,pa14 from podoplanin,putative zinc metalloprotease aq_1964	SAbDab (2024-09-13)
B [auth L]	Light Chain	IGLV3	Lambda	putative zinc metalloprotease aq_1964,pa14 from podoplanin,putative zinc metalloprotease aq_1964	SAbDab (2024-09-13)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A]	PF13180	PDZ domain (PDZ_2)	PDZ domain	-	Domain
C [auth A]	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
C [auth A]	Putative zinc metalloprotease aq_1964,PA14 from Podoplanin,Putative zinc metalloprotease aq_1964	protein binding binding signaling receptor binding chemokine binding cytokine binding protein-folding chaperone binding cation binding ion binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein metalloendopeptidase activity hydrolase activity protein binding binding signaling receptor binding chemokine binding cytokine binding protein-folding chaperone binding cation binding ion binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein metalloendopeptidase activity hydrolase activity metallopeptidase activity catalytic activity endopeptidase activity	developmental process immune system development multicellular organism development multicellular organismal process lymph node development immune system process animal organ development anatomical structure development hematopoietic or lymphoid organ development system development regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process developmental process immune system development multicellular organism development multicellular organismal process lymph node development immune system process animal organ development anatomical structure development hematopoietic or lymphoid organ development system development regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process cellular process apoptotic process programmed cell death regulation of epithelial to mesenchymal transition regulation of developmental process cellular developmental process positive regulation of biological process positive regulation of epithelial to mesenchymal transition regulation of cell differentiation mesenchyme development positive regulation of developmental process positive regulation of cell differentiation cell differentiation regulation of multicellular organismal process positive regulation of cellular process tissue development epithelial to mesenchymal transition positive regulation of multicellular organismal process mesenchymal cell differentiation regulation of actin filament-based process actin filament-based movement regulation of actin filament-based movement regulation of myofibroblast contraction actin filament-based process myofibroblast contraction actin-mediated cell contraction lymphangiogenesis vasculature development circulatory system development anatomical structure morphogenesis anatomical structure formation involved in morphogenesis lymph vessel morphogenesis lymph vessel development cell adhesion regulation of cell-substrate adhesion regulation of substrate adhesion-dependent cell spreading regulation of cell adhesion substrate adhesion-dependent cell spreading cell-substrate adhesion tube development respiratory tube development lung development respiratory system development cell migration cell motility regulation of body fluid levels response to stimulus homotypic cell-cell adhesion regulation of cell activation positive regulation of cell-cell adhesion cell-cell adhesion response to stress coagulation regulation of cell-cell adhesion regulation of biological quality response to wounding wound healing regulation of homotypic cell-cell adhesion positive regulation of cell adhesion cell activation hemostasis platelet aggregation blood coagulation regulation of platelet activation regulation of platelet aggregation positive regulation of homotypic cell-cell adhesion positive regulation of platelet aggregation platelet activation cellular response to stimulus signaling signal transduction cell communication regulation of cellular component organization cell projection organization plasma membrane bounded cell projection morphogenesis cell morphogenesis regulation of cell morphogenesis cellular component organization cell projection morphogenesis regulation of lamellipodium organization regulation of lamellipodium morphogenesis cellular component organization or biogenesis regulation of anatomical structure morphogenesis plasma membrane bounded cell projection organization regulation of cell projection organization lamellipodium organization lamellipodium morphogenesis regulation of plasma membrane bounded cell projection organization regulation of cell shape negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration locomotion small GTPase-mediated signal transduction Rho protein signal transduction intracellular signal transduction intracellular signaling cassette endothelial cell fate commitment epithelium development endothelial cell differentiation endothelium development epithelial cell fate commitment lymphatic endothelial cell differentiation epithelial cell differentiation lymphatic endothelial cell fate commitment cell fate commitment morphogenesis of an epithelium epiboly involved in wound healing morphogenesis of an epithelial sheet tissue morphogenesis epiboly wound healing, spreading of cells cellular component disassembly extracellular matrix disassembly positive regulation of cellular component organization positive regulation of extracellular matrix organization extracellular matrix organization positive regulation of extracellular matrix disassembly regulation of extracellular matrix organization regulation of extracellular matrix disassembly extracellular structure organization external encapsulating structure organization proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cell junction cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cell junction cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane cell periphery apical part of cell plasma membrane plasma membrane region apical plasma membrane ruffle leading edge membrane ruffle membrane cell projection membrane cytosol actin-based cell projection microvillus microvillus membrane anchoring junction basal part of cell basal plasma membrane basolateral plasma membrane leading edge of lamellipodium membrane microdomain membrane raft lamellipodium membrane cytoplasmic vesicle intracellular vesicle vesicle tetraspanin-enriched microdomain filopodium membrane filopodium
A [auth H]	Heavy chain of antigen binding fragment, Fab of NZ-1	-	-	-
B [auth L]	Light chain of antigen binding fragment, Fab of NZ-1	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A]	IPR052684	Podoplanin domain-containing protein	Family
C [auth A]	IPR004387	Peptidase M50, putative membrane-associated zinc metallopeptidase	Family
C [auth A]	IPR041489	PDZ domain 6	Domain
C [auth A]	IPR008915	Peptidase M50	Domain
C [auth A]	IPR001478	PDZ domain	Domain
C [auth A]	IPR036034	PDZ superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth A]	Pharos: Q86YL7	malignant mesothelioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Peritoneal Surface Malignancy subependymal giant cell astrocytoma astrocytic tumor cancer glioblastoma lung cancer malignant glioma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma peritoneal neoplasm pilocytic astrocytoma malignant mesothelioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Peritoneal Surface Malignancy subependymal giant cell astrocytoma astrocytic tumor cancer glioblastoma lung cancer malignant glioma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma peritoneal neoplasm pilocytic astrocytoma ulcerative colitis atypical teratoid rhabdoid tumor cutaneous lupus erythematosus interstitial cystitis lung carcinoma myopathy ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis breast cancer gastric carcinoma lung adenocarcinoma malignant ependymoma malignant pancreatic neoplasm oligodendroglioma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C [auth A]	SNN	Parent Component: ASN RESID: AA0302 , AA0593 PSI-MOD : L-aspartimide MOD:00307 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asn) MOD:01940 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asp) MOD:01941
B [auth L]	PCA	Parent Component: GLN RESID: AA0302 , AA0593 , AA0031 PSI-MOD : L-aspartimide MOD:00307 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asn) MOD:01940 , 2-(2-aminosuccinimidyl)pentanedioic acid (Asp) MOD:01941 , 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 R01GM133198.