6AVR
Human alpha-V beta-3 Integrin (intermediate conformation) in complex with the therapeutic antibody LM609
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | Integrin domains | 8055491 | 3002062 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Integrin alpha N-terminal domain | 8041564 | 3000314 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Integrin domains | 8055489 | 3002062 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Integrin domains | 8055305 | 3002062 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Plexin repeat-like | 8042732 | 3000415 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | vWA-like | 8055554 | 3000832 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | EGF/Laminin-like | 8041569 | 3000412 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Integrin beta tail domain | 8041567 | 3000823 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Integrin domains | 8055552 | 3002062 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Integrin domains | 8055552 | 3002062 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | EGF/Laminin-like | 8041568 | 3000412 | 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 | Integrin_alpha2_2nd | e6avrA4 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: Integrin_alpha2_2nd | ECOD (1.6) |
A | Integrin_alpha2_1st | e6avrA3 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: Integrin_alpha2_1st | ECOD (1.6) |
A | Integrin_alpha2_3rd | e6avrA1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: Integrin_alpha2_3rd | ECOD (1.6) |
A | FG-GAP_1st | e6avrA2 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: FG-GAP_1st | ECOD (1.6) |
B | INB | e6avrB7 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: INB | ECOD (1.6) |
B | Integrin_B_tail | e6avrB8 | A: a+b two layers | X: Integrin beta tail domain (From Topology) | H: Integrin beta tail domain (From Topology) | T: Integrin beta tail domain | F: Integrin_B_tail | ECOD (1.6) |
B | Integrin_beta | e6avrB2 | A: a/b three-layered sandwiches | X: HAD domain-like | H: HAD domain-related | T: vWA-like | F: Integrin_beta | ECOD (1.6) |
B | PSI_integrin | e6avrB6 | A: few secondary structure elements | X: Trefoil/Plexin domain-like (From Topology) | H: Trefoil/Plexin domain-like (From Topology) | T: Trefoil/Plexin domain-like | F: PSI_integrin | ECOD (1.6) |
B | EGF_2 | e6avrB4 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: EGF_2 | ECOD (1.6) |
B | KOG1226_1st | e6avrB1 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: KOG1226_1st | ECOD (1.6) |
B | KOG1226_2nd | e6avrB3 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: KOG1226_2nd | ECOD (1.6) |
B | EGF_2_1 | e6avrB5 | A: few secondary structure elements | X: EGF-like | H: EGF-related | T: EGF/Laminin | F: EGF_2_1 | ECOD (1.6) |
C [auth H] | C1-set_1 | e6avrH1 | 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) |
C [auth H] | V-set_12 | e6avrH2 | 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) |
D [auth L] | C1-set_4 | e6avrL2 | 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) |
D [auth L] | V-set | e6avrL1 | 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) |
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 |
---|---|---|---|---|---|---|---|---|
INTEGRIN-ALPHA-V_BETA-3 | INTEGRIN-ALPHA-V | Homo sapiens (human) | ALPHA-V | BP-LIKE-DOMAIN B-Propeller | RPI | INTEGRIN-ALPHA-V_BETA-3 | IMGT (202432-0) | |
INTEGRIN-ALPHA-V_BETA-3 | INTEGRIN-BETA-3 | Homo sapiens (human) | BETA-3 | P-LIKE-DOMAIN PSI, Y-LIKE-DOMAIN Hybrid-1, B-LIKE-DOMAIN BETA-1, Y-LIKE-DOMAIN Hybrid-2, E-LIKE-DOMAIN EGF-1, E-LIKE-DOMAIN EGF-2, E-LIKE-DOMAIN EGF-3, E-LIKE-DOMAIN EGF-4, T-LIKE-DOMAIN B-Tail | RPI | INTEGRIN-ALPHA-V_BETA-3 | IMGT (202432-0) | |
C [auth H] | Fab LM609 | VH-CH1 | Mus musculus (house mouse) | IGHV5-12-1*01, IGHJ3*01, IGHG1*02 | V-DOMAIN VH, C-DOMAIN CH1 | IG | FAB-GAMMA-1_KAPPA | IMGT (202432-0) |
D [auth L] | Fab LM609 | L-KAPPA | Mus musculus (house mouse) | IGKV5-43*01, IGKJ1*01, IGKC*01, IGKC*02 | V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA | IG | FAB-GAMMA-1_KAPPA | IMGT (202432-0) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
C [auth H] | Heavy Chain | IGHV5 | - | integrin beta-3 | integrin alpha-v | SAbDab (2024-08-16) |
D [auth L] | Light Chain | IGKV5 | Kappa | integrin beta-3 | integrin alpha-v | SAbDab (2024-08-16) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF20805 | Integrin alpha Ig-like domain 2 (Integrin_A_Ig_2) | Integrin alpha Ig-like domain 2 | This domain is found in integrin alpha and integrin alpha precursors to the C terminus of a number of Pfam:PF01839 repeats and to the N-terminus of the Pfam:PF00357 cytoplasmic region. This region is composed of an immunoglobulin-like domain. | Domain | |
PF01839 | FG-GAP repeat (FG-GAP) | FG-GAP repeat | - | Repeat | |
PF08441 | Integrin alpha Ig-like domain 1 (Integrin_A_Ig_1) | Integrin alpha Ig-like domain 1 | This domain is found in integrin alpha and integrin alpha precursors to the C terminus of a number of Pfam:PF01839 repeats and to the N-terminus of the Pfam:PF00357 cytoplasmic region. This region is composed of an immunoglobulin-like domain. | Domain | |
PF20806 | Integrin alpha Ig-like domain 3 (Integrin_A_Ig_3) | Integrin alpha Ig-like domain 3 | This domain is found in integrin alpha and integrin alpha precursors to the C terminus of a number of Pfam:PF01839 repeats and to the N-terminus of the Pfam:PF00357 cytoplasmic region. This region is composed of an immunoglobulin-like domain. | Domain | |
PF18372 | Integrin beta epidermal growth factor like domain 1 (I-EGF_1) | Integrin beta epidermal growth factor like domain 1 | This is the I-EGF 1 domain found in several integrin betas such as integrin beta 1-7. Structural analysis reveal an epidermal growth factor-like (I-EGF) domains 1 and 2 [1]. EGF1 lacks one disulfide (C2-C4) relative to the integrin EGF 2, 3, and 4 do ... | Domain | |
PF17205 | Integrin plexin domain (PSI_integrin) | Integrin plexin domain | This short disulphide rich domain is found at the N-terminus of integrin beta chains. | Domain | |
PF00362 | Integrin beta chain VWA domain (Integrin_beta) | Integrin beta chain VWA domain | Integrins have been found in animals and their homologues have also been found in cyanobacteria, probably due to horizontal gene transfer [1]. This domain corresponds to the integrin beta VWA domain. | Domain | |
PF07974 | EGF-like domain (EGF_2) | EGF-like domain | This family contains EGF domains found in a variety of extracellular proteins. | Domain | |
PF07965 | Integrin beta tail domain (Integrin_B_tail) | Integrin beta tail domain | This is the beta tail domain of the Integrin protein. Integrins are receptors which are involved in cell-cell and cell-extracellular matrix interactions. | Domain | |