1KEX: B1 Domain of Human Neuropilin-1

Crystal Structure of the b1 Domain of Human Neuropilin-1. Determined by X-ray diffraction at 1.9 Å resolution. Released 28 Jan 2003.

Method: X-ray diffraction
Resolution: 1.9 Å
Organism: Homo sapiens
Chains: 1
Atoms: 1,440
Mol. weight: 17.59 kDa
Released: 28 Jan 2003

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

Secondary structure: helices and β-sheets

1KEX contains 3 α-helices and 15 β-strands across 1 chain. 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, 15 β-strands

Element	Residues	Length	Sheet
β-strand	5-6	2	1
α-helix	16-18	3
β-strand	19-21	3	1
α-helix	27-29	3
α-helix	31-34	4
β-strand	35	1	1
β-strand	43	1	2
β-strand	54-70	17	1
β-strand	72-73	2	3
β-strand	80-81	2	3
β-strand	82-91	10	1
β-strand	97-99	3	1
β-strand	101-102	2	4
β-strand	105-106	2	4
β-strand	109-110	2	1
β-strand	119-140	22	1
β-strand	145	1	2
β-strand	146-152	7	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Neuropilin-1	A	protein	155	Homo sapiens	O14786 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>1KEX_1 Neuropilin-1 (chains A)
FKCMEALGMESGEIHSDQITASSQYSTNWSAERSRLNYPENGWTPGEDSYREWIQVDLGL
LRFVTAVGTQGAISKETKKKYYVKTYKIDVSSNGEDWITIKEGNKPVLFQGNTNPTDVVV
AVFPKPLITRFVRIKPATWETGISMRFEVYGCKIT

Primary citation

Crystal Structure of the Human Neuropilin-1 b1 Domain. Lee, C.C., Kreusch, A., McMullan, D. et al. Structure (2003) 11:99-108. DOI 10.1016/S0969-2126(02)00941-3 · PubMed

Other PDB entries of the same protein (UniProt O14786 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6FMC 0.9 Å, Neuropilin1-b1 domain in complex with EG01377, 0.9 Angstrom structure
6TKK 1.06 Å, Neuropilin 1-b1 domain in a complex with the C-terminal VEGFB186 peptide
8PFE 1.35 Å, Crystal Structure of an Hexavariant of the b1 Domain of Human Neuropilin-1 in Complex…
5JGI 1.38 Å, X-ray structure of neuropilin-1 b1 domain complexed with M45 compound
5C7G 1.45 Å, Crystal Structure of the b1 Domain of Human Neuropilin-1 in complex with a bicine molecule
5IJR 1.52 Å, X-ray structure of neuropilin-1 b1 domain complexed with Arg-1 ligand.
9EOU 1.55 Å, Crystal Structure of the b1b2 domains from Human Neuropilin-1 in complex with a peptide.
7O1N 1.56 Å, Crystal Structure of Human Neuropilin-1 b1 Domain mutant - Y297A
9S57 1.57 Å, The b1 and b2 domains of neuropilin-1 with a bound VGF TLQP-21 peptide
9F6B 1.57 Å, Human neuropilin-1 in a complex with a quinoline based antagonists
5IYY 1.6 Å, X-ray structure of neuropilin-1 b1 domain complexed with Arg-4 ligand.
5JGQ 1.6 Å, X-ray structure of neuropilin-1 b1 domain complexed with Arg-7 ligand.

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