4M7L | pdb_00004m7l

Crystal structure of the complex between human tissue factor extracellular domain and antibody 10H10 FAB fragment

External Resource: Annotation

Domain Annotation: SCOP2 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
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth T]	SCOP2B Superfamily	Fibronectin type III	8055493	3002063	SCOP2B (2022-06-29)
A [auth T]	SCOP2B Superfamily	Fibronectin type III	8055099	3002063	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C [auth H]	V-set_8	e4m7lH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
C [auth H]	C1-set_1	e4m7lH1	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]	C1-set_4	e4m7lL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
B [auth L]	V-set	e4m7lL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
A [auth T]	Tissue_fac	e4m7lT1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Tissue_fac	ECOD (1.6)
A [auth T]	Interfer-bind_2	e4m7lT2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Interfer-bind_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A [auth T]	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 H]	10H10 Fab	VH-CH1	-	IGHV1-901, IGHJ301, IGHG101, IGHG102, IGHG1*04	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202546-0)
B [auth L]	10H10 Fab	L-KAPPA	-	IGKV8-1901, IGKJ501, IGKC*01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202546-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C [auth H]	Heavy Chain	IGHV1	-	tissue factor	SAbDab (2025-11-28)
B [auth L]	Light Chain	IGKV8	Kappa	tissue factor	SAbDab (2025-11-28)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth T]	PF09294	Interferon-alpha/beta receptor, fibronectin type III (Interfer-bind)	Interferon-alpha/beta receptor, fibronectin type III	Members of this family adopt a secondary structure consisting of seven beta-strands arranged in an immunoglobulin-like beta-sandwich, in a Greek-key topology. They are required for binding to interferon-alpha [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth H]	10H10 heavy chain	-	-	-
B [auth L]	10H10 light chain	-	-	-
A [auth T]	Tissue factor	protein binding binding enzyme binding protease binding phospholipid binding lipid binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity cytokine receptor activity immune receptor activity	response to stimulus defense response activation of plasma proteins involved in acute inflammatory response primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process response to stress proteolysis protein processing metabolic process cellular process inflammatory response response to stimulus defense response activation of plasma proteins involved in acute inflammatory response primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process response to stress proteolysis protein processing metabolic process cellular process inflammatory response protein metabolic process macromolecule metabolic process acute inflammatory response multicellular organismal process regulation of body fluid levels wound healing hemostasis biological regulation blood coagulation coagulation regulation of biological quality response to wounding positive regulation of coagulation regulation of response to external stimulus positive regulation of biological process positive regulation of blood coagulation regulation of response to wounding regulation of coagulation positive regulation of response to stimulus regulation of response to stress regulation of multicellular organismal process positive regulation of hemostasis regulation of hemostasis positive regulation of response to wounding regulation of biological process regulation of blood coagulation response to external stimulus activation of blood coagulation via clotting cascade positive regulation of wound healing regulation of response to stimulus regulation of wound healing positive regulation of multicellular organismal process cellular response to stimulus regulation of cellular process cell surface receptor signaling pathway signaling response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular response to cytokine stimulus signal transduction regulation of biosynthetic process regulation of macromolecule metabolic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process positive regulation of macromolecule metabolic process regulation of metabolic process positive regulation of cellular process positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction intracellular signal transduction regulation of intracellular signal transduction positive regulation of TOR signaling TOR signaling regulation of signaling regulation of TOR signaling positive regulation of intracellular signal transduction regulation of cell communication positive regulation of signaling positive regulation of interleukin-8 production cytokine production regulation of cytokine production interleukin-8 production positive regulation of cytokine production regulation of interleukin-8 production positive chemotaxis chemotaxis positive regulation of locomotion positive regulation of positive chemotaxis regulation of chemotaxis positive regulation of chemotaxis regulation of positive chemotaxis positive regulation of response to external stimulus taxis regulation of locomotion locomotion regulation of developmental process angiogenesis regulation of vasculature development positive regulation of developmental process multicellular organism development tube morphogenesis anatomical structure development regulation of anatomical structure morphogenesis blood vessel development system development developmental process regulation of multicellular organismal development blood vessel morphogenesis tube development positive regulation of angiogenesis vasculature development circulatory system development anatomical structure morphogenesis positive regulation of vasculature development regulation of angiogenesis anatomical structure formation involved in morphogenesis regulation of cell motility positive regulation of cell migration positive regulation of cell motility regulation of cell migration cell migration cell motility positive regulation of endothelial cell apoptotic process positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process endothelial cell apoptotic process apoptotic process programmed cell death regulation of endothelial cell apoptotic process cell population proliferation positive regulation of cell population proliferation endothelial cell proliferation positive regulation of epithelial cell proliferation regulation of endothelial cell proliferation regulation of cell population proliferation positive regulation of endothelial cell proliferation regulation of epithelial cell proliferation epithelial cell proliferation regulation of platelet-derived growth factor receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway enzyme-linked receptor protein signaling pathway positive regulation of platelet-derived growth factor receptor signaling pathway platelet-derived growth factor receptor signaling pathway	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane protein-containing complex catalytic complex peptidase complex serine-type peptidase complex extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth T]	IPR001187	Tissue factor	Family
A [auth T]	IPR003961	Fibronectin type III	Domain
A [auth T]	IPR015373	Interferon/interleukin receptor domain	Domain
A [auth T]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A [auth T]	IPR050650	Type II Cytokine and Tissue Factor Receptors	Family
A [auth T]	IPR036116	Fibronectin type III superfamily	Homologous Superfamily
A [auth T]	IPR030472	Tissue factor, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth T]	Pharos: P13726	acute promyelocytic leukemia breast carcinoma nephrotic syndrome thrombotic thrombocytopenic purpura Venous Thrombosis coronary artery disease disseminated intravascular coagulation thrombotic disease cirrhosis of liver breast cancer spina bifida drug-induced liver injury heart disease inborn carbohydrate metabolic disorder kidney disease acute promyelocytic leukemia breast carcinoma nephrotic syndrome thrombotic thrombocytopenic purpura Venous Thrombosis coronary artery disease disseminated intravascular coagulation thrombotic disease cirrhosis of liver breast cancer spina bifida drug-induced liver injury heart disease inborn carbohydrate metabolic disorder kidney disease lung adenocarcinoma atherosclerosis autoimmune disease nasopharyngeal carcinoma pancreatic ductal adenocarcinoma cervical carcinoma pneumonia pulmonary embolism thrombocytopenia hereditary von Willebrand disease interstitial lung disease tuberculosis large cell medulloblastoma lung cancer adult acute respiratory distress syndrome malignant pancreatic neoplasm atopic eczema medulloblastoma Barrett esophagus cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor COVID-19 sinusitis thrombophilia hypertensive disorder invasive ductal breast carcinoma ulcerative colitis liver disease lung carcinoma anemia atypical teratoid rhabdoid tumor myocardial ischemia ovarian cancer cerebrovascular disorder pituitary cancer congenital thrombotic thrombocytopenic purpura psoriasis

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C [auth H]	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.