4JPZ: Fibroblast growth factor 13

Voltage-gated sodium channel 1.2 C-terminal domain in complex with FGF13U and Ca2+/calmodulin. Determined by X-ray diffraction at 3.02 Å resolution. Released 16 Apr 2014.

Method: X-ray diffraction
Resolution: 3.02 Å
Organism: Homo sapiens
Chains: 6
Atoms: 6,991
Mol. weight: 119.32 kDa
Ligands: CA
Released: 16 Apr 2014

Explore 4JPZ in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4JPZ contains 44 α-helices and 47 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: 7 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	13-22	10	1
β-strand	27-30	4	1
β-strand	36-39	4	1
α-helix	45-47	3
β-strand	49-55	7	1
β-strand	58-63	6	1
β-strand	68-72	5	1
β-strand	78-81	4	1
β-strand	84	1	2
α-helix	86-88	3
β-strand	90-95	6	1
β-strand	99-108	10	1
β-strand	115-117	3	1
β-strand	120	1	3
α-helix	125	1
β-strand	126	1	3
α-helix	127-128	2
α-helix	129-131	3
α-helix	137-139	3
β-strand	141-151	11	1
α-helix	152-154	3
β-strand	156	1	2

Chain B: 7 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	1792-1805	14
β-strand	1812-1814	3	4
α-helix	1818-1823	6
α-helix	1832	1
α-helix	1836-1839	4
β-strand	1845-1847	3	4
β-strand	1851-1853	3	4
α-helix	1854-1866	13
α-helix	1870-1886	17
β-strand	1898-1899	2	4
α-helix	1900-1926	27

Chain C: 9 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	10-20	11
β-strand	28	1	5
α-helix	30-40	11
α-helix	46-54	9
β-strand	64	1	5
α-helix	66-77	12
α-helix	87-91	5
β-strand	100-102	3	6
α-helix	103-112	10
α-helix	116-118	3
α-helix	119-129	11
β-strand	136-138	3	6
α-helix	139-146	8

Chain E: 5 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	12-22	11	7
β-strand	26-30	5	7
β-strand	36-39	4	7
α-helix	45-47	3
β-strand	49-55	7	7
β-strand	58-63	6	7
β-strand	68-72	5	7
β-strand	78-81	4	7
β-strand	84	1	8
α-helix	86-88	3
β-strand	89-95	7	7
β-strand	99-108	10	7
β-strand	115-117	3	7
β-strand	120	1	9
β-strand	125	1	7
β-strand	126	1	9
α-helix	127-128	2
α-helix	129-131	3
α-helix	137-139	3
β-strand	141-152	12	7
β-strand	156	1	8

Chain H: 7 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	1792-1805	14
β-strand	1812-1814	3	10
α-helix	1815-1823	9
α-helix	1832	1
α-helix	1836-1839	4
β-strand	1845-1847	3	10
β-strand	1851-1853	3	10
α-helix	1854-1866	13
α-helix	1870-1886	17
β-strand	1896-1899	4	10
α-helix	1900-1927	28

Chain I: 9 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	9-20	12
β-strand	28	1	11
α-helix	30-40	11
α-helix	46-54	9
β-strand	64	1	11
α-helix	66-77	12
α-helix	87-91	5
β-strand	100-102	3	12
α-helix	103-112	10
α-helix	116-118	3
α-helix	119-129	11
β-strand	136-138	3	12
α-helix	139-147	9

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Fibroblast growth factor 13	A, E	protein	192	Homo sapiens	Q92913 (AlphaFold model)
Sodium channel protein type 2 subunit alpha	B, H	protein	184	Homo sapiens	Q99250 (AlphaFold model)
Calmodulin	C, I	protein	149	Homo sapiens	P0DP23 (AlphaFold model)

Sequence of entity 1 (A, E), FASTA

>4JPZ_1 Fibroblast growth factor 13 (chains A, E)
MALLRKSYSEPQLKGIVTKLYSRQGYHLQLQADGTIDGTKDEDSTYTLFNLIPVGLRVVA
IQGVQTKLYLAMNSEGYLYTSELFTPECKFKESVFENYYVTYSSMIYRQQQSGRGWYLGL
NKEGEIMKGNHVKKNKPAAHFLPKPLKVAMYKEPSLHDLTEFSRSGSGTPTKSRSVSGVL
NGGKSMSHNEST

Sequence of entity 2 (B, H), FASTA

>4JPZ_2 Sodium channel protein type 2 subunit alpha (chains B, H)
MGSSHHHHHHSSGLVPRGSHMASENFSVATEESAEPLSEDDFEMFYEVWEKFDPDATQFI
EFAKLSDFADALDPPLLIAKPNKVQLIAMDLPMVSGDRIHCLDILFAFTKRVLGESGEMD
ALRIQMEERFMASNPSKVSYEPITTTLKRKQEEVSAIIIQRAYRRYLLKQKVKKVSSIYK
KDKG

Sequence of entity 3 (C, I), FASTA

>4JPZ_3 Calmodulin (chains C, I)
MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADG
NGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDE
EVDEMIREADIDGDGQVNYEEFVQMMTAK

Ligands and cofactors

ID	Name	Formula	Copies
CA	Calcium ion	Ca	8

Primary citation

Structural analyses of Ca(2+)/CaM interaction with NaV channel C-termini reveal mechanisms of calcium-dependent regulation. Wang, C., Chung, B.C., Yan, H. et al. Nat Commun (2014) 5:4896-4896. DOI 10.1038/ncomms5896 · PubMed

Other PDB entries of the same protein (UniProt Q92913 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3HBW 1.9 Å, Crystal Structure of Human Fibroblast Growth Factor Homologous Factor 2A (FHF2A), also…
4DCK 2.2 Å, Crystal structure of the C-terminus of voltage-gated sodium channel in complex with…

Browse structure collections

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