6P3S | pdb_00006p3s

Crystal structure of human Fab H5.28 in complex with influenza A H5N1 Vietnam hemagglutinin head domain


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AC1-set_1e6p3sA1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
AV-set_12e6p3sA2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
CC1-set_1e6p3sC2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
CV-set_12e6p3sC1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
FC1-set_1e6p3sF1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
FV-set_12e6p3sF2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
IC1-set_1e6p3sI1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
IV-set_12e6p3sI2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
MC1-set_1e6p3sM2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
MV-set_12e6p3sM1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
PC1-set_1e6p3sP2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
PV-set_12e6p3sP1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
SC1-set_1e6p3sS2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
SV-set_12e6p3sS1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
VC1-set_1e6p3sV2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
VV-set_12e6p3sV1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
BC1-set_4e6p3sB1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
BV-sete6p3sB2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
DC1-set_4e6p3sD1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
DV-sete6p3sD2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
GC1-set_4e6p3sG2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
GV-sete6p3sG1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
JC1-set_4e6p3sJ2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
JV-sete6p3sJ1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
NC1-set_4e6p3sN2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
NV-sete6p3sN1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
QC1-set_4e6p3sQ1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
QV-sete6p3sQ2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
TC1-set_4e6p3sT1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
TV-sete6p3sT2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
WC1-set_4e6p3sW2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
WV-sete6p3sW1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
EHemagglutinin_1st_1e6p3sE1 A: beta sandwichesX: jelly-rollH: Viral protein domain (From Topology)T: Viral protein domainF: Hemagglutinin_1st_1ECOD (1.6)
HHemagglutinin_1st_1e6p3sH1 A: beta sandwichesX: jelly-rollH: Viral protein domain (From Topology)T: Viral protein domainF: Hemagglutinin_1st_1ECOD (1.6)
KHemagglutinin_1st_1e6p3sK1 A: beta sandwichesX: jelly-rollH: Viral protein domain (From Topology)T: Viral protein domainF: Hemagglutinin_1st_1ECOD (1.6)
LHemagglutinin_1st_1e6p3sL1 A: beta sandwichesX: jelly-rollH: Viral protein domain (From Topology)T: Viral protein domainF: Hemagglutinin_1st_1ECOD (1.6)
OHemagglutinin_1st_1e6p3sO1 A: beta sandwichesX: jelly-rollH: Viral protein domain (From Topology)T: Viral protein domainF: Hemagglutinin_1st_1ECOD (1.6)
RHemagglutinin_1st_1e6p3sR1 A: beta sandwichesX: jelly-rollH: Viral protein domain (From Topology)T: Viral protein domainF: Hemagglutinin_1st_1ECOD (1.6)
UHemagglutinin_1st_1e6p3sU1 A: beta sandwichesX: jelly-rollH: Viral protein domain (From Topology)T: Viral protein domainF: Hemagglutinin_1st_1ECOD (1.6)
XHemagglutinin_1st_1e6p3sX1 A: beta sandwichesX: jelly-rollH: Viral protein domain (From Topology)T: Viral protein domainF: Hemagglutinin_1st_1ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
C2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
F2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
I2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
M2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
P2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
S2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
V2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
B2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
D2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
G2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
J2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
N2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
Q2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
T2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
W2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
E3.90.209.20 Alpha Beta Alpha-Beta Complex Hemagglutinin (Ha1 Chain) Chain: ACATH (utative)
H3.90.209.20 Alpha Beta Alpha-Beta Complex Hemagglutinin (Ha1 Chain) Chain: ACATH (utative)
K3.90.209.20 Alpha Beta Alpha-Beta Complex Hemagglutinin (Ha1 Chain) Chain: ACATH (utative)
L3.90.209.20 Alpha Beta Alpha-Beta Complex Hemagglutinin (Ha1 Chain) Chain: ACATH (utative)
O3.90.209.20 Alpha Beta Alpha-Beta Complex Hemagglutinin (Ha1 Chain) Chain: ACATH (utative)
R3.90.209.20 Alpha Beta Alpha-Beta Complex Hemagglutinin (Ha1 Chain) Chain: ACATH (utative)
U3.90.209.20 Alpha Beta Alpha-Beta Complex Hemagglutinin (Ha1 Chain) Chain: ACATH (utative)
X3.90.209.20 Alpha Beta Alpha-Beta Complex Hemagglutinin (Ha1 Chain) Chain: ACATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
A, C, F, I, M
Heavy ChainIGHV3 -hemagglutininSAbDab (2025-06-27)
B, D, G, J, N
Light ChainIGKV1 KappahemagglutininSAbDab (2025-06-27)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
E, H, K, L, O
PF00509Haemagglutinin (Hemagglutinin)Haemagglutinin- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, C, F, I, M
Human Fab H5.28 heavy chain---
B, D, G, J, N
Human Fab H5.28 light chain---
E, H, K, L, O
Hemagglutinin

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
E, H, K, L, O
IPR001364Haemagglutinin, influenzavirus A/BFamily
E, H, K, L, O
IPR008980Viral capsid/haemagglutinin proteinHomologous Superfamily
E, H, K, L, O
IPR000149Haemagglutinin, influenzavirus AFamily
E, H, K, L, O
IPR013828Haemagglutinin, HA1 chain, alpha/beta domain superfamilyHomologous Superfamily