8GJF: Afupcna

afupcna bound with peptide mimetic. Determined by X-ray diffraction at 2.0 Å resolution. Released 24 Jan 2024.

Method: X-ray diffraction
Resolution: 2.0 Å
Organisms: Aspergillus fumigatus, synthetic construct
Chains: 6
Atoms: 6,392
Mol. weight: 90.04 kDa
Released: 24 Jan 2024

Explore 8GJF in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8GJF contains 29 α-helices and 72 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: 8 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	1
α-helix	10-17	8
β-strand	25-31	7	2
β-strand	34-40	7	2
β-strand	46-53	8	2
α-helix	54-56	3
β-strand	59-62	4	1
β-strand	66-71	6	2
α-helix	72-79	8
β-strand	87-92	6	1
β-strand	98-104	7	1
β-strand	111-117	7	1
α-helix	118	1
β-strand	126	1	3
β-strand	135-140	6	2
α-helix	141-152	12
β-strand	157-162	6	4
β-strand	166-172	7	4
β-strand	176-183	8	4
β-strand	185	1	5
β-strand	194	1	5
β-strand	196-199	4	2
β-strand	203-208	6	4
α-helix	209-215	7
α-helix	216-221	6
β-strand	224-230	7	2
β-strand	233-240	8	2
β-strand	244-250	7	2
α-helix	251-252	2
β-strand	253-254	2	4

Chain B: 9 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	6
α-helix	10-20	11
β-strand	25-31	7	7
β-strand	34-40	7	7
β-strand	46-53	8	7
α-helix	54-56	3
β-strand	60-62	3	6
β-strand	66-71	6	7
α-helix	72-79	8
β-strand	87-92	6	6
β-strand	98-104	7	6
β-strand	111-117	7	6
α-helix	118	1
β-strand	126	1	8
β-strand	135-140	6	7
α-helix	141-152	12
β-strand	157-162	6	1
β-strand	166-172	7	1
β-strand	176-183	8	1
β-strand	185	1	9
α-helix	191-193	3
β-strand	195	1	9
β-strand	196-199	4	7
β-strand	203-208	6	1
α-helix	209-215	7
α-helix	216-221	6
β-strand	224-229	6	7
β-strand	235-240	6	7
β-strand	244-250	7	7
α-helix	251-252	2
β-strand	253	1	1

Chain C: 9 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	4
α-helix	10-19	10
β-strand	25-31	7	10
β-strand	34-40	7	10
β-strand	46-53	8	10
α-helix	54-56	3
β-strand	60-61	2	4
β-strand	66-71	6	10
α-helix	72-79	8
β-strand	87-92	6	4
β-strand	98-104	7	4
β-strand	111-117	7	4
α-helix	118	1
β-strand	125-126	2	11
β-strand	135-140	6	10
α-helix	141-152	12
β-strand	157-162	6	6
β-strand	166-173	8	6
β-strand	176-183	8	6
β-strand	185	1	12
α-helix	191-193	3
β-strand	195	1	12
β-strand	196-199	4	10
β-strand	203-208	6	6
α-helix	209-215	7
α-helix	216-221	6
β-strand	224-229	6	10
β-strand	235-240	6	10
β-strand	244-250	7	10
α-helix	251-252	2
β-strand	253	1	6

Chain D: 1 helix, 2 β-strands

Element	Residues	Length	Sheet
β-strand	143-144	2	4
α-helix	147-149	3
β-strand	153	1	3

Chain E: 1 helix, 2 β-strands

Element	Residues	Length	Sheet
β-strand	144	1	1
α-helix	147-149	3
β-strand	153	1	8

Chain F: 1 helix, 2 β-strands

Element	Residues	Length	Sheet
β-strand	144	1	6
α-helix	147-149	3
β-strand	153-154	2	11

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Proliferating cell nuclear antigen	A, B, C	protein	256	Aspergillus fumigatus	A0A229Y5V5 (AlphaFold model)
Lys-arg-arg-gln-thr-ser-met-thr-asp-phe-tyr-his-ser-lys-arg	D, E, F	protein	15	synthetic construct	P38936 (AlphaFold model)

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

>8GJF_1 Proliferating cell nuclear antigen (chains A, B, C)
MLEARLEQASLLKRVVDAIKDLVQDCNFDCNDSGIALQAMDNSHVALVSMLLKAEGFSAY
RCDRNIALGINLVSLTKVLRAAQNEDILTLKADDSPDAVNLMFESAETDRISEYDIKLMD
IDQEHLAIPETEYAATVEMPSAEFQRICRDLNALSESVVIEATKEGVKFSCQGDIGSGSV
TIRQHTSVDKPEQNVSIALSEPVALTFSLKYLVNFCKATSLSSKVTLCLSQEVPLLVEYG
LGSGHLRFYLAPKIGD

Sequence of entity 2 (D, E, F), FASTA

>8GJF_2 LYS-ARG-ARG-GLN-THR-SER-MET-THR-ASP-PHE-TYR-HIS-SER-LYS-ARG (chains D, E, F)
KRRQTSMTDFYHSKR

Primary citation

Towards a High-Affinity Peptidomimetic Targeting Proliferating Cell Nuclear Antigen from Aspergillus fumigatus. Vandborg, B.C., Horsfall, A.J., Pederick, J.L. et al. J Fungi (Basel) (2023) 9. DOI 10.3390/jof9111098 · PubMed

Other PDB entries of the same protein (UniProt A0A229Y5V5 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8GJ5 2.3 Å, fungal pcna and peptidomimetic

Browse structure collections

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