3KCS: PAmCherry1 in the dark state

Crystal structure of PAmCherry1 in the dark state. Determined by X-ray diffraction at 1.5 Å resolution. Released 17 Nov 2009.

Method: X-ray diffraction
Resolution: 1.5 Å
Organism: Discosoma sp.
Chains: 1
Atoms: 2,055
Mol. weight: 26.78 kDa
Released: 17 Nov 2009

Explore 3KCS in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3KCS contains 8 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: 8 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	12-22	11	1
β-strand	25-36	12	1
β-strand	41-50	10	1
α-helix	52	1
α-helix	54	1
α-helix	58-60	3
α-helix	62-64	3
α-helix	70-72	3
β-strand	74	1	1
α-helix	82-85	4
β-strand	91-99	9	1
β-strand	104-114	11	1
β-strand	117-127	11	1
β-strand	140-143	4	2
α-helix	144-145	2
β-strand	146-153	8	1
β-strand	156-161	6	1
β-strand	164-167	4	2
β-strand	172-174	3	2
β-strand	175-183	9	1
α-helix	188-192	5
β-strand	193-204	12	1
β-strand	210-220	11	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
PAmCherry1 protein	A	protein	234	Discosoma sp.	D1MPT3 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>3KCS_1 PAmCherry1 protein (chains A)
MVSKGEEDNMAIIKEFMRFKVHMEGSVNGHVFEIEGEGEGRPYEGTQTAKLKVTKGGPLP
FTWDILSPQFXSNAYVKHPADIPDYFKLSFPEGFKWERVMKFEDGGVVTVTQDSSLQDGE
FIYKVKLRGTNFPSDGPVMQKKTMGWEALSERMYPEDGALKGEVKPRVKLKDGGHYDAEV
KTTYKAKKPVQLPGAYNVNRKLDITSHNEDYTIVEQYERAEGRHSTGGMDELYK

Primary citation

Photoactivation mechanism of PAmCherry based on crystal structures of the protein in the dark and fluorescent states. Subach, F.V., Malashkevich, V.N., Zencheck, W.D. et al. Proc Natl Acad Sci U S A (2009) 106:21097-21102. DOI 10.1073/pnas.0909204106 · PubMed

Other PDB entries of the same protein (UniProt D1MPT3 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3NED 0.95 Å, mRouge
6MZ3 1.09 Å, mCherry pH sensitive mutant - M66T (mCherryTYG)
3LF3 1.15 Å, Crystal Structure of Fast Fluorescent Timer Fast-FT
7SAK 1.15 Å, Crystal Structure of LaM4 Nanobody bound to mCherry
31AL 1.5 Å, Synchrotron structure of non-photoactivated PAmCherry1
9FEL 1.5 Å, LSSmCherry1 - Directionality of Optical Properties of Fluorescent Proteins
6YLM 1.6 Å, mCherry
31JT 1.63 Å, SFX structure of non-photoactivated PAmCherry1
3KCT 1.65 Å, CRYSTAL STRUCTURE OF PAmCherry1 in the photoactivated state
3NEZ 1.7 Å, mRojoA
5H89 1.76 Å, Crystal structure of mRojoA mutant - T16V - P63Y - W143G - L163V
3LF4 1.81 Å, Crystal Structure of Fluorescent Timer Precursor Blue102

Browse structure collections

About this viewer

MolViewer shows 3KCS directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.