5MOI: Human IgE-Fc epsilon 3-4

Crystal structure of human IgE-Fc epsilon 3-4. Determined by X-ray diffraction at 2.2 Å resolution. Released 10 Jan 2018.

Method: X-ray diffraction
Resolution: 2.2 Å
Organism: Homo sapiens
Chains: 6
Atoms: 9,364
Mol. weight: 155.97 kDa
Ligands: PO4
Released: 10 Jan 2018

Explore 5MOI in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5MOI contains 59 α-helices and 114 β-strands across 6 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: 11 helices, 20 β-strands

Element	Residues	Length	Sheet
β-strand	340	1	1
α-helix	341-344	4
α-helix	345-346	2
α-helix	347-351	5
β-strand	355-359	5	1
β-strand	374-376	3	2
α-helix	380-382	3
β-strand	386-388	3	1
β-strand	400-404	5	1
α-helix	407-411	5
β-strand	416-418	3	2
β-strand	431-433	3	2
β-strand	441	1	3
α-helix	442-443	2
β-strand	444-449	6	4
α-helix	450-452	3
β-strand	453	1	5
β-strand	456	1	5
β-strand	459-469	11	4
β-strand	470	1	3
β-strand	475-480	6	6
β-strand	483-484	2	6
α-helix	485-486	2
α-helix	487-489	3
β-strand	490-492	3	4
α-helix	493-495	3
β-strand	496-497	2	4
β-strand	503-512	10	4
α-helix	513-518	6
β-strand	522-527	6	6
β-strand	536-541	6	6

Chain B: 10 helices, 20 β-strands

Element	Residues	Length	Sheet
β-strand	339-340	2	7
α-helix	341-344	4
α-helix	345	1
α-helix	346-350	5
β-strand	355-360	6	7
β-strand	372-376	5	8
β-strand	386-389	4	7
β-strand	399-404	6	7
α-helix	407-411	5
β-strand	416-420	5	8
β-strand	429-433	5	8
β-strand	441	1	9
α-helix	442-443	2
β-strand	444-449	6	10
α-helix	450-452	3
β-strand	453	1	11
β-strand	456	1	11
β-strand	459-469	11	10
β-strand	470	1	9
β-strand	475-480	6	12
β-strand	483-484	2	12
α-helix	485-486	2
α-helix	487-489	3
β-strand	490-492	3	10
α-helix	493-495	3
β-strand	496-497	2	10
β-strand	503-512	10	10
α-helix	513-518	6
β-strand	522-527	6	12
β-strand	536-541	6	12

Chain C: 9 helices, 20 β-strands

Element	Residues	Length	Sheet
β-strand	337-340	4	13
α-helix	341-344	4
α-helix	345-349	5
β-strand	355-362	8	13
β-strand	371-376	6	14
β-strand	386-391	6	13
β-strand	397-404	8	13
α-helix	407-411	5
β-strand	416-421	6	14
β-strand	429-433	5	14
α-helix	435-437	3
β-strand	441	1	15
β-strand	444-449	6	16
α-helix	450-452	3
β-strand	453	1	17
β-strand	456	1	17
β-strand	459-469	11	16
β-strand	470	1	15
β-strand	475-480	6	18
β-strand	483-484	2	18
α-helix	485-486	2
α-helix	487-489	3
β-strand	490-492	3	16
α-helix	493-495	3
β-strand	496-497	2	16
β-strand	503-512	10	16
α-helix	513-518	6
β-strand	522-527	6	18
β-strand	536-541	6	18

Chain D: 10 helices, 18 β-strands

Element	Residues	Length	Sheet
β-strand	337-341	5	19
α-helix	342-344	3
α-helix	345-349	5
β-strand	355-361	7	19
β-strand	372-376	5	20
α-helix	380-385	6
β-strand	386-391	6	19
β-strand	397-404	8	19
α-helix	407-411	5
β-strand	416-420	5	20
β-strand	430-433	4	20
β-strand	441	1	21
α-helix	442-443	2
β-strand	444-449	6	22
α-helix	450-453	4
β-strand	459-467	9	22
β-strand	470	1	21
β-strand	474-480	7	23
β-strand	483-484	2	23
α-helix	485-486	2
α-helix	487-489	3
β-strand	490-492	3	22
α-helix	493-495	3
β-strand	496	1	22
β-strand	504-512	9	22
α-helix	513-518	6
β-strand	522-528	7	23
β-strand	536-541	6	23

Chain E: 9 helices, 18 β-strands

Element	Residues	Length	Sheet
β-strand	337-340	4	24
α-helix	341-344	4
α-helix	345	1
α-helix	346-351	6
β-strand	355-361	7	24
β-strand	371-376	6	25
β-strand	386-391	6	24
β-strand	397-404	8	24
α-helix	407-411	5
β-strand	416-421	6	25
β-strand	429-433	5	25
β-strand	441	1	26
β-strand	444-449	6	27
α-helix	450-453	4
β-strand	459-469	11	27
β-strand	470	1	26
β-strand	475-480	6	28
β-strand	483-484	2	28
α-helix	485-486	2
α-helix	487-489	3
β-strand	490-492	3	27
α-helix	493-495	3
β-strand	496-497	2	27
β-strand	503-512	10	27
α-helix	513-518	6
β-strand	522-527	6	28
β-strand	536-541	6	28

Chain F: 10 helices, 18 β-strands

Element	Residues	Length	Sheet
β-strand	340	1	29
α-helix	341-344	4
α-helix	345	1
α-helix	346-351	6
β-strand	355-360	6	29
β-strand	375	1	30
β-strand	386-388	3	29
β-strand	399-404	6	29
α-helix	407-411	5
β-strand	415-417	3	30
β-strand	432-434	3	30
α-helix	435-437	3
β-strand	441	1	31
α-helix	442-443	2
β-strand	444-449	6	32
α-helix	450-453	4
β-strand	459-469	11	32
β-strand	470	1	31
β-strand	475-480	6	33
β-strand	483-484	2	33
α-helix	485-486	2
α-helix	487-489	3
β-strand	490-492	3	32
β-strand	496-497	2	32
β-strand	503-512	10	32
α-helix	513-518	6
β-strand	522-527	6	33
β-strand	536-541	6	33

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Ig epsilon chain C region	A, B, C, D, E, F	protein	223	Homo sapiens	P01854 (AlphaFold model)

Sequence of entity 1 (A, B, C, D, E, F), FASTA

>5MOI_1 Ig epsilon chain C region (chains A, B, C, D, E, F)
ADPCADSNPRGVSAYLSRPSPFDLFIRKSPTITCLVVDLAPSKGTVQLTWSRASGKPVQH
STRKEEKQRNGTLTVTSTLPVGTRDWIEGETYQCRVTHPHLPRALMRSTTKTSGPRAAPE
VYAFATPEWPGSRDKRTLACLIQNFMPEDISVQWLHNEVQLPDARHSTTQPRKTKGSGFF
VFSRLEVTRAEWEQKDEFICRAVHEAASPSQTVQRAVSVNPGK

Ligands and cofactors

ID	Name	Formula	Copies
PO4	Phosphate ion	O4 P	6

Water and common crystallization additives (EDO, PEG) are not listed.

Primary citation

Thermal sensitivity and flexibility of the C epsilon 3 domains in immunoglobulin E. Dore, K.A., Davies, A.M., Drinkwater, N. et al. Biochim Biophys Acta (2017) 1865:1336-1347. DOI 10.1016/j.bbapap.2017.08.005 · PubMed

Other PDB entries of the same protein (UniProt P01854 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5MOL 1.75 Å, Human IgE-Fc crystal structure
2WQR 1.9 Å, The high resolution crystal structure of IgE Fc
5MOK 2.0 Å, Crystal structure of human IgE-Fc epsilon 3-4
3H9Y 2.23 Å, Crystal structure of the IgE-Fc3-4 domains
5MOJ 2.26 Å, Crystal structure of IgE-Fc epsilon 3-4
1FP5 2.3 Å, Crystal structure analysis of the human IgE-fc CEPSILON3-CEPSILON4 fragment.
30AF 2.4 Å, Complex between IgE-Fc and anti-IgE Fab aeFab98
3H9Z 2.45 Å, Crystal structure of the IgE-Fc3-4 domains
5HYS 2.5 Å, Structure of IgE complexed with omalizumab
1O0V 2.6 Å, The crystal structure of IgE Fc reveals an asymmetrically bent conformation
5LGJ 2.6 Å, The crystal structure of IgE fc mutant - P333C
4GT7 2.61 Å, An engineered disulfide bond reversibly traps the IgE-Fc3-4 in a closed, non-receptor…

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