4krm Summary

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Nanobody/VHH domain 7D12 in complex with domain III of the extracellular region of EGFR, pH 3.5

The structure was published by Schmitz, K.R., Bagchi, A., Roovers, R.C., van Bergen En Henegouwen, P.M.P., and Ferguson, K.M., in 2013 in a paper entitled "Structural Evaluation of EGFR Inhibition Mechanisms for Nanobodies/VHH Domains." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 2.655 Å and deposited in 2013.

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

This PDB entry contains a complex of 2 biomacromolecules, namely Epidermal growth factor receptor and Nanobody/VHH domain 7D12.

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
A Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 92%
C Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 92%
E Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 92%
G Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 92%
I Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 92%
K Epidermal growth factor receptor P00533 (335-538) (EGFR_HUMAN)search Homo sapienssearch < 90% 214 92%
B Nanobody/VHH domain 7D12 Not available
Lama glamasearch Not available 133 93%
D Nanobody/VHH domain 7D12 Not available
Lama glamasearch Not available 133 93%
F Nanobody/VHH domain 7D12 Not available
Lama glamasearch Not available 133 93%
H Nanobody/VHH domain 7D12 Not available
Lama glamasearch Not available 133 93%
J Nanobody/VHH domain 7D12 Not available
Lama glamasearch Not available 133 93%
L Nanobody/VHH domain 7D12 Not available
Lama glamasearch Not available 133 93%


This entry contains 1 unique UniProt protein:

UniProt accession Name Organism PDB
P00533 (335 - 538) Epidermal growth factor receptor Homo sapiens

Chain Sequence family (Pfam)
A, C, E, G, I, K Furin-like cysteine rich regionsearch, Receptor L domainsearch, Growth factor receptor domain IVsearch
B, D, F, H, J, L

Chain ID Biological process (GO) Molecular function (GO) Cellular component (GO)
A, C, E, G, I, K (P00533) protein phosphorylationsearch transmembrane receptor protein tyrosine kinase signaling pathwaysearch transmembrane receptor protein tyrosine kinase activitysearch ATP bindingsearch membranesearch

Chain InterPro annotation
A, C, E, G, I, K EGF receptor, L domainsearch Furin-like repeatsearch
B, D, F, H, J, L Immunoglobulin V-set, subgroupsearch Immunoglobulin-like domainsearch Immunoglobulin V-set domainsearch Immunoglobulin-like foldsearch