6NB3 | pdb_00006nb3

MERS-CoV complex with human neutralizing LCA60 antibody Fab fragment (state 1)

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
G [auth C]SCOP2B SuperfamilyCoronavirus S2 glycoprotein stalk-like 8092536 3000282 SCOP2B (2022-06-29)
G [auth C]SCOP2B SuperfamilyCoronavirus S1 glycoprotein, domain C-like 8092681 3002615 SCOP2B (2022-06-29)
G [auth C]SCOP2B SuperfamilyConcanavalin A-like lectins/glucanases 8092534 3000120 SCOP2B (2022-06-29)
G [auth C]SCOP2B SuperfamilySARS coronavirus receptor-binding domain-like 8092532 3001706 SCOP2B (2022-06-29)
G [auth C]SCOP2B SuperfamilyCoronavirus spike S2 glycoprotein connector domain-like 8092538 3002562 SCOP2B (2022-06-29)
F [auth B]SCOP2B SuperfamilyConcanavalin A-like lectins/glucanases 8092534 3000120 SCOP2B (2022-06-29)
F [auth B]SCOP2B SuperfamilyCoronavirus spike S2 glycoprotein connector domain-like 8092538 3002562 SCOP2B (2022-06-29)
F [auth B]SCOP2B SuperfamilyCoronavirus S2 glycoprotein stalk-like 8092536 3000282 SCOP2B (2022-06-29)
F [auth B]SCOP2B SuperfamilyCoronavirus S1 glycoprotein, domain C-like 8092681 3002615 SCOP2B (2022-06-29)
ASCOP2 FamilySARS coronavirus receptor-binding domain-like 8092531 4003874 SCOP2 (2022-06-29)
ASCOP2 FamilyCoronavirus spike S1 glycoprotein N-terminal domain-like 8092533 4004563 SCOP2 (2022-06-29)
ASCOP2 FamilyCoronavirus S2 glycoprotein stalk-like 8092535 4003119 SCOP2 (2022-06-29)
ASCOP2 FamilyCoronavirus spike S2 glycoprotein connector domain-like 8092537 4007763 SCOP2 (2022-06-29)
ASCOP2 FamilyCoronavirus S1 glycoprotein, domain C-like 8092680 4007778 SCOP2 (2022-06-29)
ASCOP2 FamilyCoronavirus S1 glycoprotein, domain D-like 8092682 4007779 SCOP2 (2022-06-29)
ASCOP2 SuperfamilySARS coronavirus receptor-binding domain-like 8092532 3001706 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyConcanavalin A-like lectins/glucanases 8092534 3000120 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyCoronavirus S2 glycoprotein stalk-like 8092536 3000282 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyCoronavirus spike S2 glycoprotein connector domain-like 8092538 3002562 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyCoronavirus S1 glycoprotein, domain C-like 8092681 3002615 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyCoronavirus S1 glycoprotein, domain D-like 8092683 3002616 SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
De6nb3D1 A: PriB N-terminal domain-likeX: Rubredoxin-relatedH: Aconitase iron-sulfur domainT: Capsid_NCLDVF:ECOD (20:10:01)
C [auth H]e6nb3H1 A: PriB N-terminal domain-likeX: Rubredoxin-relatedH: Aconitase iron-sulfur domainT: Capsid_NCLDVF:ECOD (20:10:01)
Ee6nb3E1 A: PriB N-terminal domain-likeX: Rubredoxin-relatedH: Aconitase iron-sulfur domainT: Capsid_NCLDVF:ECOD (20:10:01)
B [auth L]e6nb3L1 A: PriB N-terminal domain-likeX: Rubredoxin-relatedH: Aconitase iron-sulfur domainT: Capsid_NCLDVF:ECOD (20:10:01)
G [auth C]e6nb3C2 A: PriB N-terminal domain-likeX: Rubredoxin-relatedH: Aconitase iron-sulfur domainT: Capsid_NCLDVF:ECOD (20:10:01)
G [auth C]e6nb3C4 A: Nat/IvyX: Acyl-CoA N-acyltransferases (Nat)H: Acyl-CoA N-acyltransferases (Nat)T: DNA_gyraseB_C,ToprimF:ECOD (20:10:01)
F [auth B]e6nb3B1 A: PriB N-terminal domain-likeX: Rubredoxin-relatedH: Aconitase iron-sulfur domainT: PDZ_6F:ECOD (20:10:01)
Ae6nb3A1 A: PriB N-terminal domain-likeX: Rubredoxin-relatedH: Aconitase iron-sulfur domainT: C1-setF:ECOD (20:10:01)
Ae6nb3A3 A: Nat/IvyX: Acyl-CoA N-acyltransferases (Nat)H: Acyl-CoA N-acyltransferases (Nat)T: DNA_gyraseB_C,ToprimF:ECOD (20:10:01)

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
C [auth H],
D		LCA60 Fv, anti- MERS-CoV RBD, neutralizing VH Homo sapiens (human) IGHV3-15*01, IGHV3-15*05, IGHJ4*01, IGHJ4*02, IGHJ4*03 V-DOMAIN VH IG FV-HEAVY_LAMBDA IMGT (202609-0)
B [auth L],
E		LCA60 Fv, anti- MERS-CoV RBD, neutralizing V-LAMBDA Homo sapiens (human) IGLV2-23*01, IGLV2-23*02, IGLV2-23*03, IGLJ2*01, IGLJ3*01 V-DOMAIN V-LAMBDA IG FV-HEAVY_LAMBDA IMGT (202609-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
C [auth H],
D		Heavy ChainIGHV3 -spike glycoproteinSAbDab (2026-03-13)
B [auth L],
E		Light ChainIGLV2 Lambdaspike glycoproteinSAbDab (2026-03-13)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
C [auth H],
D		LCA60 heavy chain---
B [auth L],
E		LCA60 light chain---
A,
F [auth B],
G [auth C]		Spike glycoprotein-

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A,
F [auth B],
G [auth C]		IPR018548Spike (S) protein S1 subunit, receptor-binding domain, betacoronavirusDomain
A,
F [auth B],
G [auth C]		IPR032500Spike glycoprotein S1, N-terminal domain, betacoronavirus-likeDomain
A,
F [auth B],
G [auth C]		IPR044376Spike (S) protein S1 subunit, receptor-binding domain, MERS-CoVDomain
A,
F [auth B],
G [auth C]		IPR042578Spike glycoprotein, betacoronavirusFamily
A,
F [auth B],
G [auth C]		IPR036326Spike S1 subunit, receptor binding domain superfamily, betacoronavirusHomologous Superfamily
A,
F [auth B],
G [auth C]		IPR043002Spike glycoprotein, N-terminal domain superfamilyHomologous Superfamily
A,
F [auth B],
G [auth C]		IPR044874Spike glycoprotein S2, coronavirus, heptad repeat 2Domain
A,
F [auth B],
G [auth C]		IPR044337Spike (S) protein S1 subunit, N-terminal domain, MERS-CoV-likeDomain
A,
F [auth B],
G [auth C]		IPR043614Spike glycoprotein S2, coronavirus, C-terminalDomain
A,
F [auth B],
G [auth C]		IPR044873Spike glycoprotein S2, coronavirus, heptad repeat 1Domain
A,
F [auth B],
G [auth C]		IPR043473Spike glycoprotein S2 superfamily, coronavirusHomologous Superfamily
A,
F [auth B],
G [auth C]		IPR002552Spike glycoprotein S2, coronavirusDomain