1I8K: Dsfv MR1

Crystal structure of dsfv MR1 in complex with the peptide antigen of the mutant epidermal growth factor receptor, egfrviii, at liquid nitrogen temperature. Determined by X-ray diffraction at 1.8 Å resolution. Released 14 Mar 2002.

Method: X-ray diffraction
Resolution: 1.8 Å
Organism: Mus musculus
Chains: 3
Atoms: 2,080
Mol. weight: 26.88 kDa
Released: 14 Mar 2002

Explore 1I8K in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1I8K contains 6 α-helices and 24 β-strands across 3 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 3 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	1
β-strand	10-12	3	2
β-strand	19-25	7	1
β-strand	33-38	6	2
β-strand	45-49	5	2
β-strand	53-54	2	2
α-helix	55	1
β-strand	62-67	6	1
β-strand	70-75	6	1
α-helix	80-82	3
β-strand	84-90	7	2
α-helix	96	1
β-strand	97-98	2	2
β-strand	102-105	4	2

Chain B: 3 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	303-307	5	3
β-strand	310-312	3	4
β-strand	318-325	8	3
α-helix	329-331	3
β-strand	334-339	6	4
β-strand	345-351	7	4
β-strand	358-360	3	4
β-strand	368-373	6	3
α-helix	374-376	3
β-strand	378-383	6	3
α-helix	388-390	3
β-strand	392-401	10	4
β-strand	404-410	7	4
β-strand	414-418	5	4

Chain C: 0 helices, 2 β-strands

Element	Residues	Length	Sheet
β-strand	502	1	5
β-strand	505	1	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Epidermal growth factor receptor antibody MR1SCFV light chain	A	protein	107	Mus musculus	P01660 (AlphaFold model)
Epidermal growth factor receptor antibody MR1SCFV heavy chain	B	protein	124	Mus musculus	P18529 (AlphaFold model)
Epidermal growth factor receptor, egfrviii peptide antigen	C	protein	12

Sequence of entity 1 (A), FASTA

>1I8K_1 EPIDERMAL GROWTH FACTOR RECEPTOR ANTIBODY MR1SCFV LIGHT CHAIN (chains A)
DIELTQSPASLSVATGEKVTIRCMTSTDIDDDMNWYQQKPGEPPKFLISEGNTLRPGVPS
RFSSSGTGTDFVFTIENTLSEDVGDYYCLQSFNVPLTFGCGTKLEIK

Sequence of entity 2 (B), FASTA

>1I8K_2 EPIDERMAL GROWTH FACTOR RECEPTOR ANTIBODY MR1SCFV HEAVY CHAIN (chains B)
QVKLQQSGGGLVKPGASLKLSCVTSGFTFRKFGMSWVRQTSDKCLEWVASISTGGYNTYY
SDNVKGRFTISRENAKNTLYLQMSSLKSEDTALYYCTRGYSSTSYAMDYWGQGTTVTVSG
IEGR

Sequence of entity 3 (C), FASTA

>1I8K_3 EPIDERMAL GROWTH FACTOR RECEPTOR, EGFRVIII PEPTIDE ANTIGEN (chains C)
EEKKGNYVVTDH

Primary citation

Antibody recognition of a conformational epitope in a peptide antigen: Fv-peptide complex of an antibody fragment specific for the mutant EGF receptor, EGFRvIII. Landry, R.C., Klimowicz, A.C., Lavictoire, S.J. et al. J Mol Biol (2001) 308:883-893. DOI 10.1006/jmbi.2001.4628 · PubMed

Other PDB entries of the same protein (UniProt P01660 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1J05 1.5 Å, The crystal structure of anti-carcinoembryonic antigen monoclonal antibody T84.66 Fv…
2VL5 2.1 Å, Structure of anti-collagen type II FAb CIIC1
4NJA 2.2 Å, Crystal structure of Fab 6C8 in complex with MPTS
1EJO 2.3 Å, FAB fragment of neutralising monoclonal antibody 4C4 complexed with G-H loop from fmdv.
1I8I 2.4 Å, Crystal structure of dsfv MR1 in complex with the peptide antigen of the mutant…
1MOE 2.6 Å, The three-dimensional structure of an engineered scFv T84.66 dimer or diabody in VL to…
2R29 3.0 Å, Neutralization of dengue virus by a serotype cross-reactive antibody elucidated by…
3BSZ 3.38 Å, Crystal structure of the transthyretin-retinol binding protein-Fab complex
1QFW 3.5 Å, Ternary complex of human chorionic gonadotropin with fv anti alpha subunit and fv anti…
2R69 3.8 Å, Crystal structure of Fab 1A1D-2 complexed with E-DIII of Dengue virus at 3.8 angstrom…
2R6P 24.0 Å, Fit of E protein and Fab 1A1D-2 into 24 angstrom resolution cryoEM map of Fab complexed…

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