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9z9e

Structure of FabS1CE2_ER-3c in complex with the extracellular region of EGFR

Method: X-RAY DIFFRACTION D_max: 147.0 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9z9e
deposition_date	2025-11-18
last_revision	2026-06-03
title	Structure of FabS1CE2_ER-3c in complex with the extracellular region of EGFR
keywords	epidermal growth factor receptor, high-affinity antibody, domain 3, epidermal growth factor, inhibition, SIGNALING PROTEIN; SIGNALING PROTEIN
method	X-RAY DIFFRACTION

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	39.58 Å
rg_electron	39.41 Å
i0	225495000.00
molecular_weight	117010.0 kDa
excluded_volume	144390 Å³
envelope_volume	200210 Å³
shell_volume	44513 Å³
envelope_diameter	155.6 Å
shell_rg	42.24 Å
envelope_rg	39.51 Å
shape_rg	39.33 Å
total_rg	39.83 Å
total_atoms	8153
n_residues	1041
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	147.0 Å
rg_real	39.96 Å
rg_real_error	1.77 Å
i0_real	2.2550e+08
i0_real_error	4.4470e+06
rg_reciprocal	39.72 Å
i0_reciprocal	225400000.0000
total_estimate	0.8319
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	44.1 Å
skewness	0.571
kurtosis	0.123
angular_range	— – 0.2000 Å⁻¹
current_alpha	0.0000
highest_alpha	17770000.0000
n_real_points	41
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.706; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.800; Smooth: 0.892

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4. Crystallography & Experiment

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5. Entities & Polymer Info (14)

Entity 1 polymer

description	Epidermal growth factor receptor
formula_weight	69133.8 kDa
ec_number	2.7.10.1
mutation	residues 25-645
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	8481

LEEKKVCQGTSNKLTQLGTFEDHFLSLQRMFNNCEVVLGNLEITYVQRNYDLSFLKTIQEVAGYVLIALNTVERIPLENLQIIRGNMYYENSYALAVLSNYDANKTGLKELPMRNLQEILHGAVRFSNNPALCNVESIQWRDIVSSDFLSNMSMDFQNHLGSCQKCDPSCPNGSCWGAGEENCQKLTKIICAQQCSGRCRGKSPSDCCHNQCAAGCTGPRESDCLVCRKFRDEATCKDTCPPLMLYNPTTYQMDVNPEGKYSFGATCVKKCPRNYVVTDHGSCVRACGADSYEMEEDGVRKCKKCEGPCRKVCNGIGIGEFKDSLSINATNIKHFKNCTSISGDLHILPVAFRGDSFTHTPPLDPQELDILKTVKEITGFLLIQAWPENRTDLHAFENLEIIRGRTKQHGQFSLAVVSLNITSLGLRSLKEISDGDVIISGNKNLCYANTINWKKLFGTSGQKTKIISNRGENSCKATGQVCHALCSPEGCWGPEPRDCVSCRNVSRGRECVDKCNLLEGEPREFVENSECIQCHPECLPQAMNITCTGRGPDNCIQCAHYIDGPHCVKTCPAGVMGENNTLVWKYADAGHVCHLCHPNCTYGCTGPGLEGCPTNGPKIPSLVPR

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	heavy chain
formula_weight	24696.6 kDa
mutation	K127Q and E158G
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	D

EVQLVESGGGLVQPGGSLRLSCAASGFTIYSFSIHWVRQAPGKGLEWVASISPSAGSTYYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCARHWHDYPSYYWGGMDYWGQGTLVTVFNQIQGPSVFPLAPSSKSTSGGTAALGCLVKDYFPGPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHT

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	light chain
formula_weight	23198.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	E

DIQMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQHYTTPPTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVSWYVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTQGTTSVTKSFNRGEC

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 4 branched

description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	424.4 kDa
src_method	man
entity_count	3

Entity 5 branched

description	;alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
formula_weight	1235.1 kDa
src_method	man
entity_count	1

Entity 6 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	2

Entity 7 non-polymer

description	THIOCYANATE ION
formula_weight	58.1 kDa
src_method	syn
entity_count	5

Entity 8 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	8

Entity 9 non-polymer

description	SODIUM ION
formula_weight	23.0 kDa
src_method	syn
entity_count	11

Entity 10 non-polymer

description	POTASSIUM ION
formula_weight	39.1 kDa
src_method	syn
entity_count	2

Entity 11 non-polymer

description	DI(HYDROXYETHYL)ETHER
formula_weight	106.1 kDa
src_method	syn
entity_count	4

Entity 12 non-polymer

description	TRIETHYLENE GLYCOL
formula_weight	150.2 kDa
src_method	syn
entity_count	1

Entity 13 non-polymer

description	1,2-ETHANEDIOL
formula_weight	62.1 kDa
src_method	syn
entity_count	3

Entity 14 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	251

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6. Citations (1)

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length_a	101.060 Å
length_b	72.116 Å
length_c	126.211 Å
angle_alpha	90.00 °
angle_beta	101.65 °
angle_gamma	90.00 °
z_pdb	2

space_group	P 1 21 1
int_tables_number	4
crystal_system	monoclinic

resolution	2.400 Å
resolution_low	43.110 Å
r_factor	0.1969
r_work	0.1945
r_free	0.2426

fit	/app/data/saxs_computation/z9/9z9e/9z9e.fit
pddf	/app/data/pr_computation/z9/9z9e/9z9e.pr.out
profile	/app/data/saxs_computation/z9/9z9e/9z9e.dat

Structure of FabS1CE2_ER-3c in complex with the extracellular region of EGFR

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

Diffraction

5. Entities & Polymer Info (14)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 branched

Entity 5 branched

Entity 6 non-polymer

Entity 7 non-polymer

Entity 8 non-polymer

Entity 9 non-polymer

Entity 10 non-polymer

Entity 11 non-polymer

Entity 12 non-polymer

Entity 13 non-polymer

Entity 14 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)