3b2u Summary

pdbe.org/3b2u
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Crystal structure of isolated domain III of the extracellular region of the epidermal growth factor receptor in complex with the Fab fragment of IMC-11F8

The structure was published by Li, S., Kussie, P., and Ferguson, K.M., in 2008 in a paper entitled "Structural basis for EGF receptor inhibition by the therapeutic antibody IMC-11F8." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 2.58 Å and deposited in 2007.

The experimental data on which the structure is based was also deposited.

This PDB entry contains a complex of 3 biomacromolecules, namely IMC-11F8 Fab Light chain, IMC-11F8 Fab Heavy chain, and Epidermal growth factor receptor.

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule has more than one probable quaternary state observed. For more details see the quaternary structure page.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):


Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
L IMC-11F8 Fab Light chain Not available
Homo sapienssearch Not available 213 100%
D IMC-11F8 Fab Light chain Not available
Homo sapienssearch Not available 213 100%
G IMC-11F8 Fab Light chain Not available
Homo sapienssearch Not available 213 100%
K IMC-11F8 Fab Light chain Not available
Homo sapienssearch Not available 213 100%
O IMC-11F8 Fab Light chain Not available
Homo sapienssearch Not available 213 100%
R IMC-11F8 Fab Light chain Not available
Homo sapienssearch Not available 213 100%
U IMC-11F8 Fab Light chain Not available
Homo sapienssearch Not available 213 100%
X IMC-11F8 Fab Light chain Not available
Homo sapienssearch Not available 213 100%
H IMC-11F8 Fab Heavy chain Q6GMX6 (20-50) (Q6GMX6_HUMAN)search ,
Q6GMX6 (51-120) (Q6GMX6_HUMAN)search ,
Q6GMX6 (121-237) (Q6GMX6_HUMAN)search
Homo sapienssearch ,
Homo sapienssearch ,
Homo sapienssearch
< 90% ,
< 90% ,
< 90%
223 97%
C IMC-11F8 Fab Heavy chain Not available
Homo sapienssearch < 90% 223 97%
F IMC-11F8 Fab Heavy chain Q6GMX6 (20-50) (Q6GMX6_HUMAN)search ,
Q6GMX6 (51-120) (Q6GMX6_HUMAN)search ,
Q6GMX6 (121-237) (Q6GMX6_HUMAN)search
Homo sapienssearch ,
Homo sapienssearch ,
Homo sapienssearch
< 90% ,
< 90% ,
< 90%
223 97%
J IMC-11F8 Fab Heavy chain Q6GMX6 (20-50) (Q6GMX6_HUMAN)search ,
Q6GMX6 (51-120) (Q6GMX6_HUMAN)search ,
Q6GMX6 (121-237) (Q6GMX6_HUMAN)search
Homo sapienssearch ,
Homo sapienssearch ,
Homo sapienssearch
< 90% ,
< 90% ,
< 90%
223 97%
N IMC-11F8 Fab Heavy chain Not available
Homo sapienssearch < 90% 223 97%
Q IMC-11F8 Fab Heavy chain Not available
Homo sapienssearch < 90% 223 97%
T IMC-11F8 Fab Heavy chain Not available
Homo sapienssearch < 90% 223 97%
W IMC-11F8 Fab Heavy chain Not available
Homo sapienssearch < 90% 223 97%
A Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 91%
B Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 91%
E Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 91%
I Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 91%
M Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 91%
P Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 91%
S Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 91%
V Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 91%


This entry contains 2 unique UniProt proteins:

UniProt accession Name Organism PDB
Q6GMX6 (20 - 50) IMC-11F8 Fab Heavy chain Homo sapiens
P00533 (335 - 538) Epidermal growth factor receptor Homo sapiens

Chain Structural classification (SCOP) Structural classification (CATH) Sequence family (Pfam)
L, D, G, K, O, R, U, X Immunoglobulinssearch
H, C, F, J, N, Q, T, W V set domains (antibody variable domain-like)search, C1 set domains (antibody constant domain-like)search Immunoglobulinssearch Immunoglobulin V-set domainsearch, Immunoglobulin C1-set domainsearch
A, B, E, I, M, P, S, V L domainsearch, Growth factor receptor domainsearch 24 nucleotide stem-loop, u2 snrnp hairpin iv. U2 a'. Chain A, domain 1search Furin-like cysteine rich regionsearch, Receptor L domainsearch, Growth factor receptor domain IVsearch

Chain ID Cellular component (GO)
A, B, E, I, M, P, S, V (P00533) membranesearch

Chain InterPro annotation
L, D, G, K, O, R, U, X Immunoglobulin/major histocompatibility complex, conserved sitesearch Immunoglobulin V-set, subgroupsearch Immunoglobulin C1-setsearch Immunoglobulin-like domainsearch Immunoglobulin V-set domainsearch Immunoglobulin-like foldsearch
H, C, F, J, N, Q, T, W Immunoglobulin/major histocompatibility complex, conserved sitesearch Immunoglobulin V-set, subgroupsearch Immunoglobulin C1-setsearch Immunoglobulin-like domainsearch Immunoglobulin V-set domainsearch Immunoglobulin-like foldsearch
A, B, E, I, M, P, S, V EGF receptor, L domainsearch Furin-like repeatsearch