CryoEM structure of KDELR with Legobody
External Resource: Annotation
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
| Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
|---|---|---|---|---|---|
| D [auth B] | SCOP2 Family | Phosphate binding protein-like | 8105368 | 4000229 | SCOP2 (2022-06-29) |
| D [auth B] | SCOP2 Family | Immunoglobulin-binding protein A modules | 8105460 | 4000790 | SCOP2 (2022-06-29) |
| D [auth B] | SCOP2 Superfamily | Type 2 solute binding protein-like | 8105369 | 3000083 | SCOP2 (2022-06-29) |
| D [auth B] | SCOP2 Superfamily | Bacterial immunoglobulin/albumin-binding domains | 8105461 | 3001373 | SCOP2 (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
| Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
|---|---|---|---|---|---|---|---|---|
| D [auth B] | B,IgG_binding_B | e7rxcB2 | A: alpha arrays | X: DnaD domain (From Topology) | H: DnaD domain (From Topology) | T: DnaD domain | F: B,IgG_binding_B | ECOD (1.6) |
| D [auth B] | SBP_bac_1_C | e7rxcB1 | A: a/b three-layered sandwiches | X: Periplasmic binding protein-like II (From Topology) | H: Periplasmic binding protein-like II (From Topology) | T: Periplasmic binding protein-like II | F: SBP_bac_1_C | ECOD (1.6) |
| D [auth B] | SBP_bac_1_N_1 | e7rxcB3 | A: a/b three-layered sandwiches | X: Periplasmic binding protein-like II (From Topology) | H: Periplasmic binding protein-like II (From Topology) | T: Periplasmic binding protein-like II | F: SBP_bac_1_N_1 | ECOD (1.6) |
| C [auth N] | V-set_8 | e7rxcN1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_8 | ECOD (1.6) |
| B [auth L] | C1-set_4 | e7rxcL2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: C1-set_4 | ECOD (1.6) |
| B [auth L] | V-set | e7rxcL1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set | ECOD (1.6) |
| A [auth H] | V-set_8 | e7rxcH1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_8 | ECOD (1.6) |
| A [auth H] | C1-set_1 | e7rxcH2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: C1-set_1 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
| Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
|---|---|---|---|---|---|---|
| D [auth B] | 3.40.190.10 | Alpha Beta | 3-Layer(aba) Sandwich | D-Maltodextrin-Binding Protein | domain 2 | CATH (utative) |
| C [auth N] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (utative) |
| B [auth L] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (utative) |
| A [auth H] | 2.60.40.10 | Mainly Beta | Sandwich | Immunoglobulin-like | Immunoglobulins | CATH (utative) |
SAbDab Antibody Annotation SAbDab Database Homepage
| Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
|---|---|---|---|---|---|
| C [auth N] | Heavy Chain | IGHV1 | - | er lumen protein-retaining receptor 2 | SAbDab (2025-12-19) |
| B [auth L] | Light Chain | IGKV8 | Kappa | maltodextrin-binding protein,immunoglobulin g-bindingprotein a,immunoglobulin g-binding protein g | SAbDab (2025-12-19) |
| A [auth H] | Heavy Chain | IGHV5 | - | maltodextrin-binding protein,immunoglobulin g-bindingprotein a,immunoglobulin g-binding protein g | SAbDab (2025-12-19) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| D [auth B] | PF02216 | B domain (B) | B domain | This family contains the B domain of Staphylococcal protein A, which specifically binds to the Fc portion of immunoglobulin G. | Domain |
| E [auth K] | PF00810 | ER lumen protein retaining receptor (ER_lumen_recept) | ER lumen protein retaining receptor | - | Repeat |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
| Chains | Accession | Name | Type |
|---|---|---|---|
| D [auth B] | IPR009063 | Immunoglobulin/albumin-binding domain superfamily | Homologous Superfamily |
| D [auth B] | IPR019950 | M protein-type anchor domain | Domain |
| D [auth B] | IPR005877 | YSIRK Gram-positive signal peptide | Domain |
| D [auth B] | IPR000724 | IgG-binding B | Domain |
| D [auth B] | IPR035152 | GA-like domain | Domain |
| D [auth B] | IPR019931 | LPXTG cell wall anchor domain | Domain |
| D [auth B] | IPR009063 | Immunoglobulin/albumin-binding domain superfamily | Homologous Superfamily |
| D [auth B] | IPR005877 | YSIRK Gram-positive signal peptide | Domain |
| D [auth B] | IPR036779 | LysM domain superfamily | Homologous Superfamily |
| D [auth B] | IPR005038 | Octapeptide repeat | Repeat |
| D [auth B] | IPR003132 | Protein A, Ig-binding domain | Domain |
| D [auth B] | IPR018392 | LysM domain | Domain |
| D [auth B] | IPR019931 | LPXTG cell wall anchor domain | Domain |
| E [auth K] | IPR000133 | ER lumen protein retaining receptor | Family |
Membrane Protein Annotation: PDBTM PDBTM Database Homepage
| Chains | External Link | Comment |
|---|---|---|
| PDBTM | Annotated as membrane protein by PDBTM |














