8CML

Cryo-EM structure of complement C5 in complex with nanobodies UNbC5-1 and UNbC5-2

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth B]	SCOP2B Superfamily	Anaphylotoxins (complement system)	8037606	3000387	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)
A	PF07686	e8cmlA1	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)
B [auth E]	PF01835	e8cmlE5	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF01835	ECOD (1.6)
B [auth E]	PF07703	e8cmlE6	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07703	ECOD (1.6)
B [auth E]	PF17789	e8cmlE3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF17789	ECOD (1.6)
B [auth E]	PF17790	e8cmlE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF17790	ECOD (1.6)
B [auth E]	PF17791	e8cmlE2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF17791	ECOD (1.6)
C [auth B]	PF21309	e8cmlB3	A: beta sandwiches	X: jelly-roll	H: Spermadhesin, CUB domain (From Topology)	T: Spermadhesin, CUB domain	F: PF21309	ECOD (1.6)
C [auth B]	PF00207	e8cmlB5	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF00207	ECOD (1.6)
C [auth B]	PF07677	e8cmlB4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: PF07677	ECOD (1.6)
C [auth B]	PF07678	e8cmlB6	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: PF07678	ECOD (1.6)
C [auth B]	PF01821	e8cmlB1	A: few secondary structure elements	X: Anaphylotoxins (complement system) (From Topology)	H: Anaphylotoxins (complement system) (From Topology)	T: Anaphylotoxins (complement system)	F: PF01821	ECOD (1.6)
D [auth C]	PF07686	e8cmlC1	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)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A	Heavy Chain	IGHV1	-	complement c5 alpha chain	SAbDab (2024-05-31)
D [auth C]	Heavy Chain	IGHV1	-	complement c5 alpha chain	SAbDab (2024-05-31)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Nanobody UNbC5-2	-	-	-
B [auth E]	Complement C5 beta chain	protein binding binding signaling receptor binding molecular function activator activity G protein-coupled receptor binding signaling receptor activator activity cytokine receptor binding chemokine activity molecular function regulator activity cytokine activity signaling receptor regulator activity chemokine receptor binding receptor ligand activity enzyme regulator activity protein binding binding signaling receptor binding molecular function activator activity G protein-coupled receptor binding signaling receptor activator activity cytokine receptor binding chemokine activity molecular function regulator activity cytokine activity signaling receptor regulator activity chemokine receptor binding receptor ligand activity enzyme regulator activity molecular function inhibitor activity peptidase regulator activity enzyme inhibitor activity peptidase inhibitor activity endopeptidase regulator activity endopeptidase inhibitor activity	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity humoral immune response response to stimulus positive regulation of biological process positive regulation of response to stimulus complement activation humoral immune response mediated by circulating immunoglobulin positive regulation of immune response leukocyte mediated immunity regulation of immune system process positive regulation of immune system process complement activation, classical pathway regulation of biological process adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity humoral immune response response to stimulus positive regulation of biological process positive regulation of response to stimulus complement activation humoral immune response mediated by circulating immunoglobulin positive regulation of immune response leukocyte mediated immunity regulation of immune system process positive regulation of immune system process complement activation, classical pathway regulation of biological process immune response biological regulation immunoglobulin mediated immune response adaptive immune response immune effector process regulation of response to stimulus immune system process B cell mediated immunity regulation of immune response activation of immune response cellular response to stimulus negative regulation of mononuclear cell migration negative regulation of locomotion regulation of cell motility regulation of cellular process negative regulation of biological process negative regulation of chemotaxis macrophage migration taxis negative regulation of macrophage chemotaxis cell migration regulation of mononuclear cell migration negative regulation of macrophage migration negative regulation of cell migration chemotaxis regulation of leukocyte chemotaxis regulation of leukocyte migration response to external stimulus leukocyte migration negative regulation of leukocyte migration regulation of locomotion response to chemical negative regulation of response to external stimulus negative regulation of cell motility negative regulation of leukocyte chemotaxis regulation of response to external stimulus macrophage chemotaxis regulation of macrophage migration negative regulation of cellular process regulation of cell migration myeloid leukocyte migration cell motility locomotion cell chemotaxis regulation of macrophage chemotaxis negative regulation of response to stimulus regulation of chemotaxis cellular response to chemical stimulus negative regulation of immune system process mononuclear cell migration cellular process leukocyte chemotaxis multicellular organismal process cellular biosynthetic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process positive regulation of biosynthetic process regulation of cytokine production organic substance biosynthetic process cytokine production regulation of multicellular organismal process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of vascular endothelial growth factor production regulation of biosynthetic process cellular metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression vascular endothelial growth factor production biosynthetic process positive regulation of gene expression positive regulation of multicellular organismal process positive regulation of vascular endothelial growth factor production regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process positive regulation of cytokine production regulation of metabolic process positive regulation of cellular biosynthetic process regulation of chemokine production chemokine production positive regulation of chemokine production cell surface receptor signaling pathway signaling signal transduction cell communication biological process involved in interspecies interaction between organisms disruption of cell in another organism disruption of anatomical structure in another organism killing of cells of another organism cell killing defense response response to stress inflammatory response G protein-coupled receptor signaling pathway complement activation, alternative pathway response to biotic stimulus innate immune response response to external biotic stimulus response to other organism defense response to symbiont defense response to other organism	extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cellular anatomical entity vesicle extracellular membrane-bounded organelle cell periphery protein-containing complex plasma membrane protein complex membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cellular anatomical entity vesicle extracellular membrane-bounded organelle cell periphery protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex pore complex membrane attack complex
C [auth B]	Complement C5 alpha chain	protein binding binding signaling receptor binding molecular function activator activity G protein-coupled receptor binding signaling receptor activator activity cytokine receptor binding chemokine activity molecular function regulator activity cytokine activity signaling receptor regulator activity chemokine receptor binding receptor ligand activity enzyme regulator activity protein binding binding signaling receptor binding molecular function activator activity G protein-coupled receptor binding signaling receptor activator activity cytokine receptor binding chemokine activity molecular function regulator activity cytokine activity signaling receptor regulator activity chemokine receptor binding receptor ligand activity enzyme regulator activity molecular function inhibitor activity peptidase regulator activity enzyme inhibitor activity peptidase inhibitor activity endopeptidase regulator activity endopeptidase inhibitor activity	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity humoral immune response response to stimulus positive regulation of biological process positive regulation of response to stimulus complement activation humoral immune response mediated by circulating immunoglobulin positive regulation of immune response leukocyte mediated immunity regulation of immune system process positive regulation of immune system process complement activation, classical pathway regulation of biological process adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity humoral immune response response to stimulus positive regulation of biological process positive regulation of response to stimulus complement activation humoral immune response mediated by circulating immunoglobulin positive regulation of immune response leukocyte mediated immunity regulation of immune system process positive regulation of immune system process complement activation, classical pathway regulation of biological process immune response biological regulation immunoglobulin mediated immune response adaptive immune response immune effector process regulation of response to stimulus immune system process B cell mediated immunity regulation of immune response activation of immune response cellular response to stimulus negative regulation of mononuclear cell migration negative regulation of locomotion regulation of cell motility regulation of cellular process negative regulation of biological process negative regulation of chemotaxis macrophage migration taxis negative regulation of macrophage chemotaxis cell migration regulation of mononuclear cell migration negative regulation of macrophage migration negative regulation of cell migration chemotaxis regulation of leukocyte chemotaxis regulation of leukocyte migration response to external stimulus leukocyte migration negative regulation of leukocyte migration regulation of locomotion response to chemical negative regulation of response to external stimulus negative regulation of cell motility negative regulation of leukocyte chemotaxis regulation of response to external stimulus macrophage chemotaxis regulation of macrophage migration negative regulation of cellular process regulation of cell migration myeloid leukocyte migration cell motility locomotion cell chemotaxis regulation of macrophage chemotaxis negative regulation of response to stimulus regulation of chemotaxis cellular response to chemical stimulus negative regulation of immune system process mononuclear cell migration cellular process leukocyte chemotaxis multicellular organismal process cellular biosynthetic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process positive regulation of biosynthetic process regulation of cytokine production organic substance biosynthetic process cytokine production regulation of multicellular organismal process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of vascular endothelial growth factor production regulation of biosynthetic process cellular metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression vascular endothelial growth factor production biosynthetic process positive regulation of gene expression positive regulation of multicellular organismal process positive regulation of vascular endothelial growth factor production regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process positive regulation of cytokine production regulation of metabolic process positive regulation of cellular biosynthetic process regulation of chemokine production chemokine production positive regulation of chemokine production cell surface receptor signaling pathway signaling signal transduction cell communication biological process involved in interspecies interaction between organisms disruption of cell in another organism disruption of anatomical structure in another organism killing of cells of another organism cell killing defense response response to stress inflammatory response G protein-coupled receptor signaling pathway complement activation, alternative pathway response to biotic stimulus innate immune response response to external biotic stimulus response to other organism defense response to symbiont defense response to other organism	extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cellular anatomical entity vesicle extracellular membrane-bounded organelle cell periphery protein-containing complex plasma membrane protein complex membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cellular anatomical entity vesicle extracellular membrane-bounded organelle cell periphery protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex pore complex membrane attack complex
D [auth C]	Nanobody UNbC5-1	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth E]	IPR009048	Alpha-macroglobulin, receptor-binding	Domain
B [auth E]	IPR041555	Macroglobulin domain MG3	Domain
B [auth E]	IPR001599	Alpha-2-macroglobulin	Domain
B [auth E]	IPR048843	Complement component 5, CUB domain	Domain
B [auth E]	IPR018081	Anaphylatoxin, complement system	Homologous Superfamily
B [auth E]	IPR018933	Netrin module, non-TIMP type	Domain
B [auth E]	IPR001840	Anaphylatoxin, complement system domain	Domain
B [auth E]	IPR041425	Complement C3/4/5, macroglobulin domain MG1	Domain
B [auth E]	IPR011625	Alpha-2-macroglobulin, bait region domain	Domain
B [auth E]	IPR001134	Netrin domain	Domain
B [auth E]	IPR008993	Tissue inhibitor of metalloproteinases-like, OB-fold	Homologous Superfamily
B [auth E]	IPR011626	Alpha-macroglobulin-like, TED domain	Domain
B [auth E]	IPR000020	Anaphylatoxin/fibulin	Domain
B [auth E]	IPR036595	Alpha-macroglobulin, receptor-binding domain superfamily	Homologous Superfamily
B [auth E]	IPR002890	Macroglobulin domain	Domain
B [auth E]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B [auth E]	IPR008930	Terpenoid cyclases/protein prenyltransferase alpha-alpha toroid	Homologous Superfamily
B [auth E]	IPR040839	Macroglobulin domain MG4	Domain
C [auth B]	IPR009048	Alpha-macroglobulin, receptor-binding	Domain
C [auth B]	IPR041555	Macroglobulin domain MG3	Domain
C [auth B]	IPR001599	Alpha-2-macroglobulin	Domain
C [auth B]	IPR048843	Complement component 5, CUB domain	Domain
C [auth B]	IPR018081	Anaphylatoxin, complement system	Homologous Superfamily
C [auth B]	IPR018933	Netrin module, non-TIMP type	Domain
C [auth B]	IPR001840	Anaphylatoxin, complement system domain	Domain
C [auth B]	IPR041425	Complement C3/4/5, macroglobulin domain MG1	Domain
C [auth B]	IPR011625	Alpha-2-macroglobulin, bait region domain	Domain
C [auth B]	IPR001134	Netrin domain	Domain
C [auth B]	IPR008993	Tissue inhibitor of metalloproteinases-like, OB-fold	Homologous Superfamily
C [auth B]	IPR011626	Alpha-macroglobulin-like, TED domain	Domain
C [auth B]	IPR000020	Anaphylatoxin/fibulin	Domain
C [auth B]	IPR036595	Alpha-macroglobulin, receptor-binding domain superfamily	Homologous Superfamily
C [auth B]	IPR002890	Macroglobulin domain	Domain
C [auth B]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
C [auth B]	IPR008930	Terpenoid cyclases/protein prenyltransferase alpha-alpha toroid	Homologous Superfamily
C [auth B]	IPR040839	Macroglobulin domain MG4	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth E]	Pharos: P01031	complement component 5 deficiency rheumatoid arthritis peritonitis primary immunodeficiency disease pancreatic intraductal papillary-mucinous neoplasm psoriasis Secondary Peritonitis acquired paroxysmal nocturnal hemoglobinuria lung cancer malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia tuberculosis allergic rhinitis complement component 5 deficiency rheumatoid arthritis peritonitis primary immunodeficiency disease pancreatic intraductal papillary-mucinous neoplasm psoriasis Secondary Peritonitis acquired paroxysmal nocturnal hemoglobinuria lung cancer malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia tuberculosis allergic rhinitis atypical hemolytic-uremic syndrome malignant ependymoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor seborrheic infantile dermatitis atypical teratoid rhabdoid tumor glioblastoma malignant mesothelioma neuromyelitis optica ovarian cancer
C [auth B]	Pharos: P01031	complement component 5 deficiency rheumatoid arthritis peritonitis primary immunodeficiency disease pancreatic intraductal papillary-mucinous neoplasm psoriasis Secondary Peritonitis acquired paroxysmal nocturnal hemoglobinuria lung cancer malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia tuberculosis allergic rhinitis complement component 5 deficiency rheumatoid arthritis peritonitis primary immunodeficiency disease pancreatic intraductal papillary-mucinous neoplasm psoriasis Secondary Peritonitis acquired paroxysmal nocturnal hemoglobinuria lung cancer malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia tuberculosis allergic rhinitis atypical hemolytic-uremic syndrome malignant ependymoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor seborrheic infantile dermatitis atypical teratoid rhabdoid tumor glioblastoma malignant mesothelioma neuromyelitis optica ovarian cancer