2POX: Fluorescent protein Dronpa

Name: PDB 2POX: Dark state structure of the reversibly switchable fluorescent protein Dronpa
Published: 2007-07-17
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: fluorescent protein

Dark state structure of the reversibly switchable fluorescent protein Dronpa. Determined by X-ray diffraction at 1.95 Å resolution. Released 17 Jul 2007.

Method: X-ray diffraction
Resolution: 1.95 Å
Organism: Echinophyllia sp. SC22
Chains: 4
Atoms: 8,450
Mol. weight: 116.99 kDa
Released: 17 Jul 2007

Explore 2POX in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2POX contains 28 α-helices and 54 β-strands across 4 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: 6 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	0-3	4
β-strand	8-18	11	1
β-strand	21-32	12	1
β-strand	37-46	10	1
α-helix	48	1
α-helix	50	1
α-helix	55-58	4
β-strand	70	1	1
α-helix	78-81	4
β-strand	87-95	9	1
β-strand	100-110	11	1
β-strand	113-123	11	1
β-strand	136-139	4	1
α-helix	140-141	2
β-strand	142-149	8	1
β-strand	152-163	12	1
β-strand	168-179	12	1
β-strand	189-200	12	1
β-strand	206-216	11	1

Chain B: 7 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	0-3	4
β-strand	8-18	11	2
β-strand	21-32	12	2
β-strand	37-46	10	2
α-helix	48	1
α-helix	50	1
α-helix	55-58	4
β-strand	70	1	2
α-helix	80-82	3
β-strand	87-95	9	2
β-strand	100-110	11	2
β-strand	113-123	11	2
β-strand	136-139	4	2
α-helix	140-141	2
β-strand	142-149	8	2
β-strand	152-163	12	2
β-strand	168-179	12	2
α-helix	184-187	4
β-strand	189-200	12	2
β-strand	206-216	11	2

Chain C: 7 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	8-18	11	3
β-strand	21-32	12	3
β-strand	37-46	10	3
α-helix	48	1
α-helix	50	1
α-helix	55-58	4
α-helix	66-68	3
β-strand	70	1	3
α-helix	78-81	4
β-strand	87-95	9	3
β-strand	100-110	11	3
β-strand	113-123	11	3
β-strand	136-139	4	3
α-helix	140-141	2
β-strand	142-149	8	3
β-strand	152-163	12	3
β-strand	168-179	12	3
α-helix	184-187	4
β-strand	189-200	12	3
β-strand	206-216	11	3

Chain D: 8 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	8-18	11	4
β-strand	21-32	12	4
β-strand	37-46	10	4
α-helix	48	1
α-helix	50	1
α-helix	55-58	4
α-helix	66-68	3
β-strand	70	1	4
α-helix	71-72	2
α-helix	78-82	5
β-strand	87-95	9	4
β-strand	100-110	11	4
β-strand	113-123	11	4
β-strand	136-139	4	4
α-helix	140-141	2
β-strand	142-149	8	4
β-strand	152-163	12	4
β-strand	164	1	5
β-strand	166	1	5
β-strand	168-179	12	4
α-helix	184-187	4
β-strand	189-200	12	4
β-strand	206-216	11	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Fluorescent protein Dronpa	A, B, C, D	protein	255	Echinophyllia sp. SC22	Q5TLG6 (AlphaFold model)

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

>2POX_1 Fluorescent protein Dronpa (chains A, B, C, D)
MRGSHHHHHHGMASMTGGQQMGRDLYDDDDKDPMSVIKPDMKIKLRMEGAVNGHPFAIEG
VGLGKPFEGKQSMDLKVKEGGPLPFAYDILTTVFXNRVFAKYPENIVDYFKQSFPEGYSW
ERSMNYEDGGICNATNDITLDGDCYIYEIRFDGVNFPANGPVMQKRTVKWEPSTEKLYVR
DGVLKGDVNMALSLEGGGHYRCDFKTTYKAKKVVQLPDYHFVDHHIEIKSHDKDYSNVNL
HEHAEAHSELPRQAK

Primary citation

Structural basis for reversible photoswitching in Dronpa. Andresen, M., Stiel, A.C., Trowitzsch, S. et al. Proc Natl Acad Sci U S A (2007) 104:13005-13009. DOI 10.1073/pnas.0700629104 · PubMed

Other PDB entries of the same protein (UniProt Q5TLG6 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2IE2 1.7 Å, The 1.7 A crystal structure of Dronpa: a photoswitchable green fluorescent protein
7RRH 1.75 Å, Crystal structure of fast switching R66M/M159T mutant of fluorescent protein Dronpa…
2Z1O 1.75 Å, Crystal structure of a photoswitchable GFP-like protein Dronpa in the bright-state
2GX2 1.8 Å, Crystal structural and functional analysis of GFP-like fluorescent protein Dronpa
2IOV 1.8 Å, Bright-state structure of the reversibly switchable fluorescent protein Dronpa
2Z6Z 1.8 Å, Crystal structure of a photoswitchable GFP-like protein Dronpa in the bright-state
5HZU 1.89 Å, Crystal structure of Dronpa-Ni2+
6MYB 1.9 Å, Room-temperature structure of deuterated Tetdron (isomorph 1)
2GX0 1.9 Å, Crystal structural and functional analysis of GFP-like fluorescent protein
7RRK 1.93 Å, Crystal structure of fast switching M159E mutant of fluorescent protein Dronpa (Dronpa2)
4EMQ 1.95 Å, Crystal structure of a single mutant of Dronpa, the green-on-state PDM1-4
4HQ8 1.95 Å, Crystal structure of a green-to-red photoconvertible DRONPA, pcDRONPA in the…

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