5ESZ
Crystal Structure of Broadly Neutralizing Antibody CH04, Isolated from Donor CH0219, in Complex with Scaffolded Trimeric HIV-1 Env V1V2 Domain from the Clade AE Strain A244
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
B [auth L] | SCOP2B Superfamily | Immunoglobulin (Ig) domain-like | 8091527 | 3000071 | SCOP2B (2022-06-29) |
F [auth B] | SCOP2B Superfamily | Immunoglobulin (Ig) domain-like | 8091527 | 3000071 | 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) |
---|---|---|---|---|---|---|---|---|
A [auth H] | C1-set_1 | e5eszH2 | 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) |
A [auth H] | V-set_12 | e5eszH1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_12 | ECOD (1.6) |
E [auth A] | C1-set_1 | e5eszA3 | 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) |
E [auth A] | V-set_12 | e5eszA2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set_12 | ECOD (1.6) |
B [auth L] | C1-set_4 | e5eszL2 | 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 | e5eszL1 | 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) |
F [auth B] | C1-set_4 | e5eszB1 | 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) |
F [auth B] | V-set | e5eszB2 | 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) |
C | YgbB | e5eszC1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF (From Topology) | T: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF | F: YgbB | ECOD (1.6) |
D [auth G] | YgbB | e5eszG1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF (From Topology) | T: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF | F: YgbB | ECOD (1.6) |
IMGT Antibody Annotation IMGT Database Homepage
Chain | Protein Name | Description | Organism Name | Gene Allele Name(s) | Domain Name(s) | Receptor Type | Receptor Description | Provenance Source |
---|---|---|---|---|---|---|---|---|
A [auth H], E [auth A] | CH04 mAb, anti-gp120 [HIV-1], neutralizing | VH-CH1 | Homo sapiens (human) | IGHV3-20*01, IGHJ2*01, IGHG1*01, IGHG1*02, IGHG1*04, IGHG1*05 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-1_KAPPA | IMGT (202440-0) |
B [auth L], F [auth B] | CH04 mAb, anti-gp120 [HIV-1], neutralizing | L-KAPPA | Homo sapiens (human) | IGKV3-20*01, IGKJ2*01, IGKC*01 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | IG | FAB-GAMMA-1_KAPPA | IMGT (202440-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
A [auth H], E [auth A] | Heavy Chain | IGHV3 | - | 2-c-methyl-d-erythritol 2,4-cyclodiphosphate synthase,envelope glycoprotein gp160 | SAbDab (2024-10-11) |
B [auth L], F [auth B] | Light Chain | IGKV3 | Kappa | 2-c-methyl-d-erythritol 2,4-cyclodiphosphate synthase,envelope glycoprotein gp160 | SAbDab (2024-10-11) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
B [auth L], F [auth B] | PF07654 | Immunoglobulin C1-set domain (C1-set) | Immunoglobulin C1-set domain | - | Domain |
C, D [auth G] | PF02542 | YgbB family (YgbB) | YgbB family | - | Family |