8DD7: Drosophila Cryptochrome

The Cryo-EM structure of Drosophila Cryptochrome in complex with Timeless. Determined by electron microscopy at 3.3 Å resolution. Released 15 Feb 2023.

Method
Electron microscopy
Resolution
3.3 Å
Organisms
Homo sapiens, Drosophila melanogaster
Chains
2
Atoms
10,370
Mol. weight
264.62 kDa
Ligands
FAD
Released
15 Feb 2023

Explore 8DD7 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8DD7 contains 80 α-helices and 15 β-strands across 2 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: 31 helices, 9 β-strands

ElementResiduesLengthSheet
β-strand6-1051
β-strand1812
α-helix21-277
β-strand35-4171
α-helix54-7421
β-strand82-8431
α-helix88-9811
β-strand101-10771
α-helix112-1143
α-helix115-12713
β-strand131-13551
α-helix143-1508
α-helix158-16811
α-helix170-1745
β-strand17712
α-helix180-1823
α-helix187-1893
α-helix190-1956
α-helix205-2084
α-helix211-2133
α-helix214-2185
α-helix227-24519
α-helix252-2554
α-helix268-2725
α-helix277-29317
α-helix310-32011
α-helix342-3443
α-helix347-3548
α-helix361-37212
α-helix378-38912
α-helix397-40711
α-helix413-42311
α-helix440-4478
α-helix452-4576
α-helix472-4743
α-helix477-4837
β-strand48713
β-strand49113
α-helix492-4943
α-helix498-51619
Chain B: 49 helices, 6 β-strands
ElementResiduesLengthSheet
α-helix4-63
α-helix7-1711
β-strand18-2144
β-strand24-2744
α-helix31-4313
α-helix51-599
α-helix611
α-helix62-665
α-helix67-726
α-helix76-8914
α-helix93-953
α-helix99-1024
α-helix106-12621
α-helix129-14315
α-helix149-1502
α-helix151-16919
α-helix1721
α-helix173-1775
α-helix185-20117
α-helix204-21310
α-helix217-2193
α-helix221-23111
α-helix237-24711
α-helix546-57025
α-helix578-59114
α-helix592-5965
α-helix597-60812
α-helix618-63417
α-helix639-6413
α-helix648-66821
α-helix677-70226
α-helix708-72215
α-helix730-7367
α-helix745-76521
α-helix776-7794
α-helix787-79711
α-helix799-8024
α-helix807-81812
α-helix830-84213
α-helix851-8544
α-helix859-8624
α-helix991-100111
α-helix1006-101712
α-helix1020-10278
β-strand103315
β-strand103615
α-helix1040-10467
β-strand105416
α-helix1059-10624
α-helix1063-10664
α-helix1068-10769
β-strand109016
α-helix10911
α-helix1103-11075
α-helix1210-12189

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Methylated-DNA--protein-cysteine methyltransferase,Cryptochrome-1 fusionAprotein746Homo sapiens, Drosophila melanogasterE5BBQ0 (AlphaFold model), O77059 (AlphaFold model)
Protein timeless,Methylated-DNA--protein-cysteine methyltransferase fusionBprotein1618Drosophila melanogaster, Homo sapiensE5BBQ0 (AlphaFold model), P49021 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>8DD7_1 Methylated-DNA--protein-cysteine methyltransferase,Cryptochrome-1 fusion (chains A)
MEQKLISEEDLGGGEQKLISEEDLGGGEQKLISEEDLGGGMDKDCEMKRTTLDSPLGKLE
LSGCEQGLHRIIFLGKGTSAADAVEVPAPAAVLGGPEPLIQATAWLNAYFHQPEAIEEFP
VPALHHPVFQQESFTRQVLWKLLKVVKFGEVISESHLAALVGNPAATAAVNTALDGNPVP
ILIPCHRVVQGDSDVGPYLGGLAVKEWLLAHEGHRLGKPGLGGGSGMATRGANVIWFRHG
LRLHDNPALLAALADKDQGIALIPVFIFDGESAGTKNVGYNRMRFLLDSLQDIDDQLQAA
TDGRGRLLVFEGEPAYIFRRLHEQVRLHRICIEQDCEPIWNERDESIRSLCRELNIDFVE
KVSHTLWDPQLVIETNGGIPPLTYQMFLHTVQIIGLPPRPTADARLEDATFVELDPEFCR
SLKLFEQLPTPEHFNVYGDNMGFLAKINWRGGETQALLLLDERLKVEQHAFERGFYLPNQ
ALPNIHDSPKSMSAHLRFGCLSVRRFYWSVHDLFKNVQLRACVRGVQMTGGAHITGQLIW
REYFYTMSVNNPNYDRMEGNDICLSIPWAKPNENLLQSWRLGQTGFPLIDGAMRQLLAEG
WLHHTLRNTVATFLTRGGLWQSWEHGLQHFLKYLLDADWSVCAGNWMWVSSSAFERLLDS
SLVTCPVALAKRLDPDGTYIKQYVPELMNVPKEFVHEPWRMSAEQQEQYECLIGVHYPER
IIDLSMAVKRNMLAMKSLRNSLITPP
Sequence of entity 2 (B), FASTA
>8DD7_2 Protein timeless,Methylated-DNA--protein-cysteine methyltransferase fusion (chains B)
MDWLLATPQLYSAFSSLGCLEGDTYVVNPNALAILEEINYKLTYEDQTLRTFRRAIGFGQ
NVRSDLIPLLENAKDDAVLESVIRILVNLTVPVECLFSVDVMYRTDVGRHTIFELNKLLY
TSKEAFTEARSTKSVVEYMKHILESDPKLSPHKCDQINNCLLLLRNILHIPETHAHCVMP
MMQSMPHGISMQNTILWNLFIQSIDKLLLYLMTCPQRAFWGVTMVQLIALIYKDQHVSTL
QKLLSLWFEASLSESSEDNESNTSPPKQGSGDSSPMLTSDPTSDSSDNGSNGRGMGGGMR
EGTAATLQEVSRKGQEYQNAMARVPADKPDGSEEASDMTGNDSEQPGSPEQSQPAGESMD
DGDYEDQRHRQLNEHGEEDEDEDEVEEEEYLQLGPASEPLNLTQQPADKVNNTTNPTSSA
PQGCLGNEPFKPPPPLPVRASTSAHAQMQKFNESSYASHVSAVKLGQKSPHAGQLQLTKG
KCCPQKRECPSSQSELSDCGYGTQVENQESISTSSNDDDGPQGKPQHQKPPCNTKPRNKP
RTIMSPMDKKELRRKKLVKRSKSSLINMKGLVQHTPTDDDISNLLKEFTVDFLLKGYSYL
VEELHMQLLSNAKVPIDTSHFFWLVTYFLKFAAQLELDMEHIDTILTYDVLSYLTYEGVS
LCEQLELNARQEGSDLKPYLRRMHLVVTAIREFLQAIDTYNKVTHLNEDDKAHLRQLQLQ
ISEMSDLRCLFVLLLRRFNPSIHSKQYLQDLVVTNHILLLILDSSAKLGGCQTIRLSEHI
TQFATLEVMHYYGILLEDFNNNGEFVNDCIFTMMHHIGGDLGQIGVLFQPIILKTYSRIW
EADYELCDDWSDLIEYVIHKFMNTPPKSPLTIPTTSLTEMTKEHNQEHTVCSWSQEEMDT
LYWYYVQSKKNNDIVGKIVKLFSNNGNKLKTRISIIQQLLQQDIITLLEYDDLMKFEDAE
YQRTLLTTPTSATTESGIEIKECAYGKPSDDVQILLDLIIKENKAQHLLWLQRILIECCF
VKLTLRSGLKVPEGDHIMEPVAYHCICKQKSIPVVQWNNEQSTTMLYQPFVLLLHKLGIQ
LPADAGSIFARIPDYWTPETMYGLAKKLGPLDKLNLKFDASELEDATASSPSRYHHTGPR
NSLSSVSSLDVDLGDTEELALIPEVDAAVEKAHAMASTPSPSEIFAVPKTKHCNSIIRYT
PDPTPPVPNWLQLVMRSKCNHRTGPSGDPSDCIGSSSTTVDDEGFGKSISAATSQAASTS
MSTVNPTTTLSLNMLNTFMGSHNENSSSSGCGGTVSSLSMVALMSTGAAGGGGNTSGLEM
DVDASMKSSFERLEVNGSHFSRANNLDQEYSAMVASVYEKEKELNSDNVSLASDLTRMYV
SDEDDRLERTEIRVPHYHLEGGSGMDKDCEMKRTTLDSPLGKLELSGCEQGLHRIIFLGK
GTSAADAVEVPAPAAVLGGPEPLMQATAWLNAYFHQPEAIEEFPVPALHHPVFQQESFTR
QVLWKLLKVVKFGEVISYSHLAALAGNPAATAAVKTALSGNPVPILIPCHRVVQGDLDVG
GYEGGLAVKEWLLAHEGHRLGKPGLGGGGYPYDVPDYARTGGGSGSRLEEELRRRLTE

Ligands and cofactors

IDNameFormulaCopies
FADFlavin-adenine dinucleotideC27 H33 N9 O15 P21

Primary citation

Cryptochrome-Timeless structure reveals circadian clock timing mechanisms. Lin, C., Feng, S., DeOliveira, C.C. et al. Nature (2023) 617:194-199. DOI 10.1038/s41586-023-06009-4 · PubMed

Other PDB entries of the same protein (UniProt E5BBQ0 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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