Cryo-EM structure of VEEV VLP-LDLRAD3-D1 complex at the 2-fold axes
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
| Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
|---|---|---|---|---|---|
| N [auth S] | SCOP2B Superfamily | Trypsin-like serine proteases | 8044424 | 3000114 | SCOP2B (2022-06-29) |
| F | SCOP2B Superfamily | Trypsin-like serine proteases | 8044424 | 3000114 | SCOP2B (2022-06-29) |
| A | SCOP2B Superfamily | Trypsin-like serine proteases | 8044424 | 3000114 | 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) |
|---|---|---|---|---|---|---|---|---|
| O [auth T] | Alpha_E3_glycop | e7fflT1 | A: a+b two layers | X: Glycoprotein E3 (From Topology) | H: Glycoprotein E3 (From Topology) | T: Glycoprotein E3 | F: Alpha_E3_glycop | ECOD (1.6) |
| K [auth P] | Alpha_E3_glycop | e7fflP1 | A: a+b two layers | X: Glycoprotein E3 (From Topology) | H: Glycoprotein E3 (From Topology) | T: Glycoprotein E3 | F: Alpha_E3_glycop | ECOD (1.6) |
| I | Alpha_E3_glycop | e7fflI1 | A: a+b two layers | X: Glycoprotein E3 (From Topology) | H: Glycoprotein E3 (From Topology) | T: Glycoprotein E3 | F: Alpha_E3_glycop | ECOD (1.6) |
| H | Ldl_recept_a | e7fflH1 | A: few secondary structure elements | X: EGF-like | H: LDL receptor-like module (From Topology) | T: LDL receptor-like module | F: Ldl_recept_a | ECOD (1.6) |
| E | Ldl_recept_a | e7fflE1 | A: few secondary structure elements | X: EGF-like | H: LDL receptor-like module (From Topology) | T: LDL receptor-like module | F: Ldl_recept_a | ECOD (1.6) |
| D | Ldl_recept_a | e7fflD1 | A: few secondary structure elements | X: EGF-like | H: LDL receptor-like module (From Topology) | T: LDL receptor-like module | F: Ldl_recept_a | ECOD (1.6) |
| G | Alpha_E1_glycop_2nd | e7fflG2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: Alpha_E1_glycop_2nd | ECOD (1.6) |
| G | Alpha_E1_glycop_1st | e7fflG1 | A: beta complex topology | X: Viral glycoprotein, central and dimerisation domains-like | H: Viral glycoprotein, central and dimerisation domains (From Topology) | T: Viral glycoprotein, central and dimerisation domains | F: Alpha_E1_glycop_1st | ECOD (1.6) |
| G | Alpha_E1_glycop_like | e7fflG3 | A: extended segments | X: Transmembrane helix of E1 envelope glycoprotein (From Topology) | H: Transmembrane helix of E1 envelope glycoprotein (From Topology) | T: Transmembrane helix of E1 envelope glycoprotein | F: Alpha_E1_glycop_like | ECOD (1.6) |
| C | Alpha_E1_glycop_2nd | e7fflC2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: Alpha_E1_glycop_2nd | ECOD (1.6) |
| C | Alpha_E1_glycop_1st | e7fflC1 | A: beta complex topology | X: Viral glycoprotein, central and dimerisation domains-like | H: Viral glycoprotein, central and dimerisation domains (From Topology) | T: Viral glycoprotein, central and dimerisation domains | F: Alpha_E1_glycop_1st | ECOD (1.6) |
| C | Alpha_E1_glycop_like | e7fflC3 | A: extended segments | X: Transmembrane helix of E1 envelope glycoprotein (From Topology) | H: Transmembrane helix of E1 envelope glycoprotein (From Topology) | T: Transmembrane helix of E1 envelope glycoprotein | F: Alpha_E1_glycop_like | ECOD (1.6) |
| B | Alpha_E1_glycop_2nd | e7fflB2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: Alpha_E1_glycop_2nd | ECOD (1.6) |
| B | Alpha_E1_glycop_1st | e7fflB1 | A: beta complex topology | X: Viral glycoprotein, central and dimerisation domains-like | H: Viral glycoprotein, central and dimerisation domains (From Topology) | T: Viral glycoprotein, central and dimerisation domains | F: Alpha_E1_glycop_1st | ECOD (1.6) |
| B | Alpha_E1_glycop_like | e7fflB3 | A: extended segments | X: Transmembrane helix of E1 envelope glycoprotein (From Topology) | H: Transmembrane helix of E1 envelope glycoprotein (From Topology) | T: Transmembrane helix of E1 envelope glycoprotein | F: Alpha_E1_glycop_like | ECOD (1.6) |
| N [auth S] | Peptidase_S3 | e7fflS1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: FMN-binding split barrel | F: Peptidase_S3 | ECOD (1.6) |
| F | Peptidase_S3 | e7fflF1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: FMN-binding split barrel | F: Peptidase_S3 | ECOD (1.6) |
| A | Peptidase_S3 | e7fflA1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: FMN-binding split barrel | F: Peptidase_S3 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| J, L [auth Q], M [auth R] | PF00943 | Alphavirus E2 glycoprotein (Alpha_E2_glycop) | Alphavirus E2 glycoprotein | - | Family |
| I, K [auth P], O [auth T] | PF01563 | Alphavirus E3 glycoprotein (Alpha_E3_glycop) | Alphavirus E3 glycoprotein | - | Family |
| PF00057 | Low-density lipoprotein receptor domain class A (Ldl_recept_a) | Low-density lipoprotein receptor domain class A | - | Repeat | |
| PF01589 | Alphavirus E1 glycoprotein (Alpha_E1_glycop) | Alphavirus E1 glycoprotein | - | Family | |
| A, F, N [auth S] | PF00944 | Alphavirus core protein (Peptidase_S3) | Alphavirus core protein | Also known as coat protein C and capsid protein C. This makes the literature very confusing. Alphaviruses consist of a nucleoprotein core, a lipid membrane which envelopes the core, and glycoprotein spikes protruding from the lipid membrane. | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Pharos: Disease Associations Pharos Homepage Annotation
Membrane Protein Annotation: OPM OPM Database Homepage
| Chains | External Link | Type | Class | Superfamily | Family |
|---|---|---|---|---|---|
| OPM | Transmembrane | Bitopic proteins | Viral membrane fusion glycoprotein | Alphavirus E1 glycoprotein |














