7NE0 | pdb_00007ne0

Structure of the ternary complex between Netrin-1, Repulsive-Guidance Molecule-B (RGMB) and Neogenin


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
DSCOP2B Superfamilyvon Willebrand factor type D domain-like 8107357 3002872 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
DRGM_N_Ce7ne0D1 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: RGM_N_CECOD (1.6)
ALaminin_Ne7ne0A3 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Galactose-binding domain-likeF: Laminin_NECOD (1.6)
ALaminin_EGF_1e7ne0A1 A: few secondary structure elementsX: EGF-likeH: EGF-relatedT: EGF/LamininF: Laminin_EGF_1ECOD (1.6)
ALaminin_EGFe7ne0A4 A: few secondary structure elementsX: EGF-likeH: EGF-relatedT: EGF/LamininF: Laminin_EGFECOD (1.6)
ALaminin_EGF_2e7ne0A2 A: few secondary structure elementsX: EGF-likeH: EGF-relatedT: EGF/LamininF: Laminin_EGF_2ECOD (1.6)
Bfn3e7ne0B1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: fn3ECOD (1.6)
Bfn3_6e7ne0B2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: fn3_6ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
B2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF06535Repulsive guidance molecule (RGM) N-terminal domain (RGM_N)Repulsive guidance molecule (RGM) N-terminal domainThis entry represents the small N-terminal three helical bundle domain found at the N-terminus of proteins in the Repulsive Guidance Molecule (RGM) family, which is involved in various functions related to nervous system development and signaling. Me ...This entry represents the small N-terminal three helical bundle domain found at the N-terminus of proteins in the Repulsive Guidance Molecule (RGM) family, which is involved in various functions related to nervous system development and signaling. Members of this family act as bone morphogenetic protein (BMP) coreceptors, enhancing BMP signaling pathways. They play crucial roles in regulating neural tube closure, inhibiting neurite outgrowth, and promoting neuronal adhesion. Additionally, they are involved in the regulation of iron homeostasis through the modulation of hepcidin expression. The RGM family also influences axon guidance and synapse formation, contributing to the patterning of the developing nervous system.
Domain
PF06534Repulsive guidance molecule (RGM) C-terminal domain (RGM_C)Repulsive guidance molecule (RGM) C-terminal domainThis entry represents the C-terminal VWD like domain found at the C-terminus of proteins in the Repulsive Guidance Molecule (RGM) family, which is involved in various functions related to nervous system development and signaling. Members of this fami ...This entry represents the C-terminal VWD like domain found at the C-terminus of proteins in the Repulsive Guidance Molecule (RGM) family, which is involved in various functions related to nervous system development and signaling. Members of this family act as bone morphogenetic protein (BMP) coreceptors, enhancing BMP signaling pathways. They play crucial roles in regulating neural tube closure, inhibiting neurite outgrowth, and promoting neuronal adhesion. Additionally, they are involved in the regulation of iron homeostasis through the modulation of hepcidin expression. The RGM family also influences axon guidance and synapse formation, contributing to the patterning of the developing nervous system.
Domain
PF00053Laminin EGF domain (EGF_laminin)Laminin EGF domainThis family is like Pfam:PF00008 but has 8 conserved cysteines instead of six. Domain
PF00055Laminin N-terminal (Domain VI) (Laminin_N)Laminin N-terminal (Domain VI)Domain
PF00041Fibronectin type III domain (fn3)Fibronectin type III domainDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Repulsive Guidance Molecule B C-terminal region (chain D)
Netrin-1
Neogenin- -
Repulsive Guidance Molecule B

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
PharosQ6NW40
PharosO95631
PharosQ6NW40