4HDQ | pdb_00004hdq

Crystal Structure of the Ternary Complex of KRIT1 bound to both the Rap1 GTPase and the Heart of Glass (HEG1) cytoplasmic tail

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
BSCOP2B SuperfamilyRas-like P-loop GTPases 8057488 3002022 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
BRase4hdqB1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: RasECOD (1.6)
AFERM_C_CCM1e4hdqA5 A: beta barrelsX: PH domain-likeH: PH domain-like (From Topology)T: PH domain-likeF: FERM_C_CCM1ECOD (1.6)
AFERM_Me4hdqA4 A: alpha bundlesX: Acyl-CoA binding protein-like (From Topology)H: Acyl-CoA binding protein-like (From Topology)T: Acyl-CoA binding protein-likeF: FERM_MECOD (1.6)
AKOG4335e4hdqA2 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Ubiquitin-likeF: KOG4335ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
B3.40.50.300 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolasesCATH (4.2.0)
A3.10.20.90 Alpha Beta Roll Ubiquitin-like (UB roll) Phosphatidylinositol 3-kinase Catalytic SubunitCATH (4.2.0)
A1.20.80.10 Mainly Alpha Up-down Bundle Acyl-CoA Binding Protein CATH (4.2.0)
A2.30.29.30 Mainly Beta Roll PH-domain like Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF00071Ras family (Ras)Ras familyIncludes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motili ...Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices [1].
Domain
PF24522KRIT1/FRMD8, FERM domain C-lobe (KRIT1_FRMD8_FERM_C)KRIT1/FRMD8, FERM domain C-lobeKRIT1, also known as CCM1, a Rap1-binding protein, is expressed in endothelial cells where it is present in cell-cell junctions and associated with junctional proteins [1]. Together with CCM2/MGC4607 and CCM3/PDCD10, KRIT1 constitutes a set of protei ...KRIT1, also known as CCM1, a Rap1-binding protein, is expressed in endothelial cells where it is present in cell-cell junctions and associated with junctional proteins [1]. Together with CCM2/MGC4607 and CCM3/PDCD10, KRIT1 constitutes a set of proteins whose mutations are found in cerebral cavernous malformations, characterised by cerebral hemorrhages and vascular malformations in the central nervous system. KRIT1 localization is mediated by its FERM domain [2]. This entry represents the FERM domain C-lobe. This entry also includes the paralogue of KRIT1, FRMD8, a protein that promotes the cell surface stability of iRhom1/RHBDF1 and iRhom2/RHBDF2 and prevents their degradation via the endolysosomal pathway. By acting on iRhoms, FRMD8 is involved in ADAM17-mediated shedding of TNF, amphiregulin/AREG, HBEGF and TGFA from the cell surface [3,4].
Domain
PF00373FERM central domain (FERM_M)FERM central domainThis domain is the central structural domain of the FERM domain. Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Protein HEG homolog 1
Ras-related protein Rap-1b
Krev interaction trapped protein 1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR018097EGF-like calcium-binding, conserved siteConserved Site
IPR000742EGF-like domainDomain
IPR049883NOTCH1 EGF-like calcium-binding domainDomain
IPR001881EGF-like calcium-binding domainDomain
IPR000152EGF-type aspartate/asparagine hydroxylation sitePTM
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR005225Small GTP-binding domainDomain
IPR020849Small GTPase, Ras-typeFamily
IPR001806Small GTPaseFamily
IPR038851Ras-related protein Rap1Family
IPR041791Krev interaction trapped protein 1, FERM domain C-lobeDomain
IPR000299FERM domainDomain
IPR014352FERM/acyl-CoA-binding protein superfamilyHomologous Superfamily
IPR043058KRIT, N-terminal NPxY motif-rich domain superfamilyHomologous Superfamily
IPR036770Ankyrin repeat-containing domain superfamilyHomologous Superfamily
IPR019748FERM central domainDomain
IPR056485KRIT1, ARM-repeats domainDomain
IPR011993PH-like domain superfamilyHomologous Superfamily
IPR002110Ankyrin repeatRepeat
IPR019749Band 4.1 domainDomain
IPR035963FERM superfamily, second domainHomologous Superfamily
IPR032022KRIT, N-terminal NPxY motif-rich regionDomain
IPR051594KRIT1/FRMD8Family

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
Pharos:  Q9ULI3
Pharos:  P61224
Pharos:  O00522