1PDG: Human platelet-derived growth factor bb

Name: PDB 1PDG: Crystal structure of human platelet-derived growth factor bb
Published: 1994-01-31
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: growth factor

Crystal structure of human platelet-derived growth factor bb. Determined by X-ray diffraction at 3.0 Å resolution. Released 31 Jan 1994.

Method: X-ray diffraction
Resolution: 3.0 Å
Organism: Homo sapiens
Chains: 3
Atoms: 2,035
Mol. weight: 36.94 kDa
Released: 31 Jan 1994

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

Secondary structure: helices and β-sheets

1PDG contains 3 α-helices and 27 β-strands across 3 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: 0 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	17-24	8	1
β-strand	39-40	2	2
β-strand	43-50	8	1
β-strand	58-62	5	3
β-strand	65-78	14	2
β-strand	81-94	14	2
β-strand	97-101	5	3

Chain B: 2 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	8	1
β-strand	9-10	2	2
α-helix	11	1
β-strand	13	1	1
β-strand	17-22	6	4
β-strand	45-50	6	4
β-strand	60-62	3	5
β-strand	65-74	10	6
β-strand	77-78	2	7
β-strand	81-82	2	7
β-strand	85-94	10	6
β-strand	97-99	3	5

Chain C: 1 helix, 10 β-strands

Element	Residues	Length	Sheet
α-helix	9-11	3
β-strand	17-19	3	8
β-strand	22	1	9
β-strand	45	1	9
β-strand	48-50	3	8
β-strand	61-65	5	10
β-strand	68-74	7	11
β-strand	77	1	12
β-strand	82	1	12
β-strand	85-91	7	11
β-strand	94-98	5	10

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Platelet-derived growth factor bb	A, B, C	protein	109	Homo sapiens	P01127 (AlphaFold model)

Sequence of entity 1 (A, B, C), FASTA

>1PDG_1 PLATELET-DERIVED GROWTH FACTOR BB (chains A, B, C)
SLGSLTIAEPAMIAECKTRTEVFEISRRLIDRTNANFLVWPPCVEVQRCSGCCNNRNVQC
RPTQVQLRPVQVRKIEIVRKKPIFKKATVTLEDHLACKCETVAAARPVT

Primary citation

Crystal structure of human platelet-derived growth factor BB. Oefner, C., D'Arcy, A., Winkler, F.K. et al. EMBO J (1992) 11:3921-3926. PubMed

Other PDB entries of the same protein (UniProt P01127 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4HQU 2.2 Å, Crystal structure of human PDGF-BB in complex with a modified nucleotide aptamer…
3MJG 2.3 Å, The structure of a platelet derived growth factor receptor complex
4HQX 2.3 Å, CRYSTAL STRUCTURE OF HUMAN PDGF-BB IN COMPLEX WITH A Modified nucleotide aptamer…
4QCI 2.3 Å, PDGF-B blocking antibody bound to PDGF-BB
6T9E 2.99 Å, Crystal structure of a bispecific DutaFab in complex with human PDGF

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