7WPQ | pdb_00007wpq

Cryo-EM structure of VWF D'D3 dimer complexed with D1D2 at 3.27 angstron resolution (2 units)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
HSCOP2B Superfamilyvon Willebrand factor type D domain-like 8107359 3002872 SCOP2B (2022-06-29)
FSCOP2B Superfamilyvon Willebrand factor type D domain-like 8107359 3002872 SCOP2B (2022-06-29)
DSCOP2B Superfamilyvon Willebrand factor type D domain-like 8107359 3002872 SCOP2B (2022-06-29)
CSCOP2B Superfamilyvon Willebrand factor type D domain-like 8107359 3002872 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
HF_UNCLASSIFIEDe7wpqH4 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: F_UNCLASSIFIEDECOD (1.6)
HTILe7wpqH1 A: few secondary structure elementsX: EGF-likeH: Serine protease inhibitors (From Topology)T: Serine protease inhibitorsF: TILECOD (1.6)
HPacifastin_I_1e7wpqH2 A: few secondary structure elementsX: Fibronectin type I module-like (From Homology)H: Fibronectin type I module-likeT: Fibronectin type I moduleF: Pacifastin_I_1ECOD (1.6)
HVWCe7wpqH6 A: few secondary structure elementsX: Fibronectin type I module-like (From Homology)H: Fibronectin type I module-likeT: Fibronectin type I moduleF: VWCECOD (1.6)
HF_UNCLASSIFIEDe7wpqH3 A: few secondary structure elementsX: VWF C8-3 module (From Topology)H: VWF C8-3 module (From Topology)T: VWF C8-3 moduleF: F_UNCLASSIFIEDECOD (1.6)
FF_UNCLASSIFIEDe7wpqF3 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: F_UNCLASSIFIEDECOD (1.6)
FTILe7wpqF4 A: few secondary structure elementsX: EGF-likeH: Serine protease inhibitors (From Topology)T: Serine protease inhibitorsF: TILECOD (1.6)
FPacifastin_I_1e7wpqF2 A: few secondary structure elementsX: Fibronectin type I module-like (From Homology)H: Fibronectin type I module-likeT: Fibronectin type I moduleF: Pacifastin_I_1ECOD (1.6)
FVWCe7wpqF1 A: few secondary structure elementsX: Fibronectin type I module-like (From Homology)H: Fibronectin type I module-likeT: Fibronectin type I moduleF: VWCECOD (1.6)
FF_UNCLASSIFIEDe7wpqF5 A: few secondary structure elementsX: VWF C8-3 module (From Topology)H: VWF C8-3 module (From Topology)T: VWF C8-3 moduleF: F_UNCLASSIFIEDECOD (1.6)
DF_UNCLASSIFIEDe7wpqD5 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: F_UNCLASSIFIEDECOD (1.6)
DTILe7wpqD2 A: few secondary structure elementsX: EGF-likeH: Serine protease inhibitors (From Topology)T: Serine protease inhibitorsF: TILECOD (1.6)
DPacifastin_I_1e7wpqD6 A: few secondary structure elementsX: Fibronectin type I module-like (From Homology)H: Fibronectin type I module-likeT: Fibronectin type I moduleF: Pacifastin_I_1ECOD (1.6)
DVWCe7wpqD1 A: few secondary structure elementsX: Fibronectin type I module-like (From Homology)H: Fibronectin type I module-likeT: Fibronectin type I moduleF: VWCECOD (1.6)
DF_UNCLASSIFIEDe7wpqD4 A: few secondary structure elementsX: VWF C8-3 module (From Topology)H: VWF C8-3 module (From Topology)T: VWF C8-3 moduleF: F_UNCLASSIFIEDECOD (1.6)
CF_UNCLASSIFIEDe7wpqC5 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: F_UNCLASSIFIEDECOD (1.6)
CTILe7wpqC2 A: few secondary structure elementsX: EGF-likeH: Serine protease inhibitors (From Topology)T: Serine protease inhibitorsF: TILECOD (1.6)
CPacifastin_I_1e7wpqC4 A: few secondary structure elementsX: Fibronectin type I module-like (From Homology)H: Fibronectin type I module-likeT: Fibronectin type I moduleF: Pacifastin_I_1ECOD (1.6)
CVWCe7wpqC1 A: few secondary structure elementsX: Fibronectin type I module-like (From Homology)H: Fibronectin type I module-likeT: Fibronectin type I moduleF: VWCECOD (1.6)
CF_UNCLASSIFIEDe7wpqC3 A: few secondary structure elementsX: VWF C8-3 module (From Topology)H: VWF C8-3 module (From Topology)T: VWF C8-3 moduleF: F_UNCLASSIFIEDECOD (1.6)
GF_UNCLASSIFIEDe7wpqG2 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: F_UNCLASSIFIEDECOD (1.6)
GMCR_beta_N,Pacifastin_I_1e7wpqG1 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: MCR_beta_N,Pacifastin_I_1ECOD (1.6)
GTILe7wpqG6 A: few secondary structure elementsX: EGF-likeH: Serine protease inhibitors (From Topology)T: Serine protease inhibitorsF: TILECOD (1.6)
GF_UNCLASSIFIEDe7wpqG5 A: few secondary structure elementsX: VWF C8-3 module (From Topology)H: VWF C8-3 module (From Topology)T: VWF C8-3 moduleF: F_UNCLASSIFIEDECOD (1.6)
EF_UNCLASSIFIEDe7wpqE2 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: F_UNCLASSIFIEDECOD (1.6)
EMCR_beta_N,Pacifastin_I_1e7wpqE1 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: MCR_beta_N,Pacifastin_I_1ECOD (1.6)
ETILe7wpqE6 A: few secondary structure elementsX: EGF-likeH: Serine protease inhibitors (From Topology)T: Serine protease inhibitorsF: TILECOD (1.6)
EF_UNCLASSIFIEDe7wpqE5 A: few secondary structure elementsX: VWF C8-3 module (From Topology)H: VWF C8-3 module (From Topology)T: VWF C8-3 moduleF: F_UNCLASSIFIEDECOD (1.6)
BF_UNCLASSIFIEDe7wpqB2 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: F_UNCLASSIFIEDECOD (1.6)
BMCR_beta_N,Pacifastin_I_1e7wpqB1 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: MCR_beta_N,Pacifastin_I_1ECOD (1.6)
BTILe7wpqB6 A: few secondary structure elementsX: EGF-likeH: Serine protease inhibitors (From Topology)T: Serine protease inhibitorsF: TILECOD (1.6)
BF_UNCLASSIFIEDe7wpqB5 A: few secondary structure elementsX: VWF C8-3 module (From Topology)H: VWF C8-3 module (From Topology)T: VWF C8-3 moduleF: F_UNCLASSIFIEDECOD (1.6)
AF_UNCLASSIFIEDe7wpqA2 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: F_UNCLASSIFIEDECOD (1.6)
AMCR_beta_N,Pacifastin_I_1e7wpqA1 A: beta barrelsX: Repulsive guidance molecule (RGM) family (From Topology)H: Repulsive guidance molecule (RGM) family (From Topology)T: Repulsive guidance molecule (RGM) familyF: MCR_beta_N,Pacifastin_I_1ECOD (1.6)
ATILe7wpqA6 A: few secondary structure elementsX: EGF-likeH: Serine protease inhibitors (From Topology)T: Serine protease inhibitorsF: TILECOD (1.6)
AF_UNCLASSIFIEDe7wpqA5 A: few secondary structure elementsX: VWF C8-3 module (From Topology)H: VWF C8-3 module (From Topology)T: VWF C8-3 moduleF: F_UNCLASSIFIEDECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
H2.10.25.10 Mainly Beta Ribbon Laminin LamininCATH (utative)
F2.10.25.10 Mainly Beta Ribbon Laminin LamininCATH (utative)
D2.10.25.10 Mainly Beta Ribbon Laminin LamininCATH (utative)
C2.10.25.10 Mainly Beta Ribbon Laminin LamininCATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
C, D, F, H
PF25962Otogelin-like/Mucin TIL domain (TIL_OTOGL_Mucin)Otogelin-like/Mucin TIL domainThis entry describes a trypsin inhibitor-like (TIL) cysteine rich domain found in Otogelin, Otogelin-like proteins and Mucin proteins from eukaryotes. Otogelin is a structurally complex glycoprotein with specialised roles in the inner ear membranes. ...This entry describes a trypsin inhibitor-like (TIL) cysteine rich domain found in Otogelin, Otogelin-like proteins and Mucin proteins from eukaryotes. Otogelin is a structurally complex glycoprotein with specialised roles in the inner ear membranes. While it shares some structural similarities with mucins, including von Willebrand factor-like domains and cysteine-rich regions, it differs in its glycosylation patterns and functions. Otogelin undergoes primarily N-glycosylation and plays a critical role in the organisation of the extracellular matrix within the inner ear. In contrast, mucins like MUC5B and MUC19 are heavily O-glycosylated, gel-forming proteins that provide lubrication and protective barriers on mucosal epithelial surfaces [1-5]. The TIL domain is characterised by the presence of five disulfide bonds (two of which are located on either side of the reactive site) in a single small protein domain of 61-62 residues [6].
Domain
C, D, F, H
PF08742C8 domain (C8)C8 domainThis domain contains 8 conserved cysteine residues, but this family only contains 7 of them to overlaps with other domains. It is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin. It is often fo ...This domain contains 8 conserved cysteine residues, but this family only contains 7 of them to overlaps with other domains. It is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin. It is often found on proteins containing Pfam:PF00094 and Pfam:PF01826.
Domain
C, D, F, H
PF00094von Willebrand factor type D domain (VWD)von Willebrand factor type D domainSwiss:P17554 contains a vwd domain. Its function is unrelated but the similarity is very strong by several methods. This domain is structurally homologous to the C-terminal domain of repulsive guidance molecules (RGM) despite low sequence identity [2 ...Swiss:P17554 contains a vwd domain. Its function is unrelated but the similarity is very strong by several methods. This domain is structurally homologous to the C-terminal domain of repulsive guidance molecules (RGM) despite low sequence identity [2].
Domain
C, D, F, H
PF16164VWA N-terminal (VWA_N2)VWA N-terminal- Family
C, D, F, H
PF23244Von Willebrand factor-like domain (VWF)Von Willebrand factor-like domainThis domain is found in human von Willebrand factor (vWF) and similar proteins mainly found in animals. vWF is important in the maintenance of hemostasis and acts as a chaperone for coagulation factor VIII, delivering it to the site of injury. This d ...This domain is found in human von Willebrand factor (vWF) and similar proteins mainly found in animals. vWF is important in the maintenance of hemostasis and acts as a chaperone for coagulation factor VIII, delivering it to the site of injury. This domain adopts an all-beta structure [1]. It is often found associated to Pfam:PF00094.
Domain
A, B, E, G
PF08742C8 domain (C8)C8 domainThis domain contains 8 conserved cysteine residues, but this family only contains 7 of them to overlaps with other domains. It is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin. It is often fo ...This domain contains 8 conserved cysteine residues, but this family only contains 7 of them to overlaps with other domains. It is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin. It is often found on proteins containing Pfam:PF00094 and Pfam:PF01826.
Domain
A, B, E, G
PF01826Trypsin Inhibitor like cysteine rich domain (TIL)Trypsin Inhibitor like cysteine rich domainThis family contains trypsin inhibitors as well as a domain found in many extracellular proteins. The domain typically contains ten cysteine residues that form five disulphide bonds. The cysteine residues that form the disulphide bonds are 1-7, 2-6, ...This family contains trypsin inhibitors as well as a domain found in many extracellular proteins. The domain typically contains ten cysteine residues that form five disulphide bonds. The cysteine residues that form the disulphide bonds are 1-7, 2-6, 3-5, 4-10 and 8-9.
Domain
A, B, E, G
PF00094von Willebrand factor type D domain (VWD)von Willebrand factor type D domainSwiss:P17554 contains a vwd domain. Its function is unrelated but the similarity is very strong by several methods. This domain is structurally homologous to the C-terminal domain of repulsive guidance molecules (RGM) despite low sequence identity [2 ...Swiss:P17554 contains a vwd domain. Its function is unrelated but the similarity is very strong by several methods. This domain is structurally homologous to the C-terminal domain of repulsive guidance molecules (RGM) despite low sequence identity [2].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
C, D, F, H
von Willebrand factor
A, B, E, G
von Willebrand antigen 2

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
C, D, F, H
IPR050780Mucin/von Willebrand/Thrombospondin superfamilyFamily
C, D, F, H
IPR002919Trypsin Inhibitor-like, cysteine rich domainDomain
C, D, F, H
IPR001007VWFC domainDomain
C, D, F, H
IPR037578Von Willebrand factorFamily
C, D, F, H
IPR036465von Willebrand factor A-like domain superfamilyHomologous Superfamily
C, D, F, H
IPR001846von Willebrand factor, type D domainDomain
C, D, F, H
IPR014853VWF/SSPO/Zonadhesin-like, cysteine-rich domainDomain
C, D, F, H
IPR032361von Willebrand factor, VWA N-terminal domainDomain
C, D, F, H
IPR036084Serine protease inhibitor-like superfamilyHomologous Superfamily
C, D, F, H
IPR058753Otogelin-like/Mucin, TIL domainDomain
C, D, F, H
IPR002035von Willebrand factor, type ADomain
C, D, F, H
IPR006207Cystine knot, C-terminalDomain
A, B, E, G
IPR050780Mucin/von Willebrand/Thrombospondin superfamilyFamily
A, B, E, G
IPR002919Trypsin Inhibitor-like, cysteine rich domainDomain
A, B, E, G
IPR001007VWFC domainDomain
A, B, E, G
IPR037578Von Willebrand factorFamily
A, B, E, G
IPR036465von Willebrand factor A-like domain superfamilyHomologous Superfamily
A, B, E, G
IPR001846von Willebrand factor, type D domainDomain
A, B, E, G
IPR014853VWF/SSPO/Zonadhesin-like, cysteine-rich domainDomain
A, B, E, G
IPR032361von Willebrand factor, VWA N-terminal domainDomain
A, B, E, G
IPR036084Serine protease inhibitor-like superfamilyHomologous Superfamily
A, B, E, G
IPR058753Otogelin-like/Mucin, TIL domainDomain
A, B, E, G
IPR002035von Willebrand factor, type ADomain
A, B, E, G
IPR006207Cystine knot, C-terminalDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
C, D, F, H
PharosP04275
A, B, E, G
PharosP04275