1EDH: E-cadherin domains 1 and 2

E-cadherin domains 1 and 2 in complex with calcium. Determined by X-ray diffraction at 2.0 Å resolution. Released 11 Jan 1997.

Method: X-ray diffraction
Resolution: 2.0 Å
Organism: Mus musculus
Chains: 2
Atoms: 3,483
Mol. weight: 50.08 kDa
Ligands: HG, CA
Released: 11 Jan 1997

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

Secondary structure: helices and β-sheets

1EDH contains 8 α-helices and 38 β-strands across 2 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, 19 β-strands

Element	Residues	Length	Sheet
β-strand	7-10	4	1
β-strand	19-23	5	2
α-helix	27-30	4
β-strand	34-39	6	1
β-strand	41	1	3
β-strand	45	1	3
β-strand	51-53	3	2
β-strand	59-62	4	2
β-strand	73-82	10	1
β-strand	87	1	1
β-strand	92-99	8	1
α-helix	100	1
β-strand	107-108	2	4
β-strand	112-118	7	5
β-strand	126-129	4	6
β-strand	132-133	2	4
β-strand	147-154	8	5
β-strand	163-165	3	6
β-strand	171-174	4	6
β-strand	186-194	9	5
α-helix	196-198	3
β-strand	202-212	11	5

Chain B: 5 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	7-10	4	7
β-strand	19-23	5	8
α-helix	27-30	4
β-strand	34-39	6	7
β-strand	41	1	9
β-strand	45	1	9
β-strand	51-53	3	8
β-strand	59-62	4	8
β-strand	73-82	10	7
β-strand	87	1	7
α-helix	90-91	2
β-strand	92-99	8	7
α-helix	100	1
β-strand	107-108	2	10
β-strand	112-118	7	11
α-helix	121-122	2
β-strand	126-129	4	12
β-strand	132-133	2	10
β-strand	147-154	8	11
β-strand	163-165	3	12
β-strand	171-174	4	12
β-strand	186-194	9	11
α-helix	196-198	3
β-strand	202-212	11	11

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
E-cadherin	A, B	protein	226	Mus musculus	P09803 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>1EDH_1 E-CADHERIN (chains A, B)
MRDWVIPPISCPENEKGEFPKNLVQIKSNRDKETKVFYSITGQGADKPPVGVFIIERETG
WLKVTQPLDREAIAKYILYSHAVSSNGEAVEDPMEIVITVTDQNDNRPEFTQEVFEGSVA
EGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDPELPHKNMFTVNRDTGVISVLTSG
LDRESYPTYTLVVQAADLQGEGLSTTAKAVITVKDINDNAPVFNPS

Ligands and cofactors

ID	Name	Formula	Copies
HG	Mercury (II) ion	Hg	2
CA	Calcium ion	Ca	6

Primary citation

Structural basis of calcium-induced E-cadherin rigidification and dimerization. Nagar, B., Overduin, M., Ikura, M. et al. Nature (1996) 380:360-364. DOI 10.1038/380360a0 · PubMed

Other PDB entries of the same protein (UniProt P09803 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3QRB 1.8 Å, crystal structure of E-cadherin EC1-2 P5A P6A
2OMW 1.85 Å, Crystal structure of InlA S192N Y369S/mEC1 complex
1I7W 2.0 Å, Beta-catenin/phosphorylated E-cadherin complex
3LNE 2.0 Å, Crystal structure of E-cadherin EC12 K14E
3LNI 2.3 Å, Crystal structure of E-cadherin EC12 E89A
2QVF 2.4 Å, mouse E-cadherin domains 1,2
4QD2 2.4 Å, Molecular basis for disruption of E-cadherin adhesion by botulinum neurotoxin A complex
3LNF 2.5 Å, Crystal structure of E-cadherin EC12 K14EW2A
3LNH 2.6 Å, Crystal structure of E-cadherin EC12 W2A
7AR4 2.6 Å, Crystal structure of beta-catenin in complex with cyclic peptide inhibitor
3LNG 2.7 Å, Crystal structure of E-cadherin EC12 AA extension
3Q2L 2.7 Å, Mouse E-cadherin EC1-2 V81D mutant

Browse structure collections

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