3CF6: Epac2

Structure of Epac2 in complex with cyclic-AMP and Rap. Determined by X-ray diffraction at 2.2 Å resolution. Released 29 Jul 2008.

Method
X-ray diffraction
Resolution
2.2 Å
Organisms
Mus musculus, Homo sapiens
Chains
2
Atoms
6,561
Mol. weight
99.08 kDa
Ligands
SP1
Released
29 Jul 2008

Explore 3CF6 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3CF6 contains 41 α-helices and 32 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 E: 35 helices, 24 β-strands

ElementResiduesLengthSheet
α-helix311-3155
α-helix318-3203
α-helix323-33311
α-helix337-3393
α-helix344-3518
β-strand355-35951
β-strand365-36732
β-strand37213
β-strand375-38171
β-strand383-38862
β-strand392-39872
β-strand402-40321
α-helix405-4106
β-strand41313
β-strand417-42042
β-strand425-43171
α-helix432-4387
β-strand447-45154
β-strand454-46184
β-strand480-48564
α-helix487-49610
α-helix502-5043
α-helix505-52218
α-helix525-53612
α-helix545-57026
α-helix571-5766
α-helix578-59821
α-helix604-6118
β-strand651-65775
β-strand663-66975
β-strand67316
α-helix674-68512
β-strand691-69665
β-strand702-70435
α-helix705-7062
β-strand71016
α-helix713-7153
β-strand721-72665
α-helix727-7326
α-helix737-7393
α-helix747-7504
α-helix755-77117
α-helix775-7839
α-helix785-7873
α-helix793-81422
α-helix819-83820
β-strand84117
α-helix842-85211
α-helix855-8584
α-helix861-8655
α-helix869-88012
α-helix885-89713
β-strand90317
α-helix906-91914
β-strand923-92424
β-strand927-92934
α-helix930-94617
α-helix963-9697
α-helix978-98811
Chain R: 6 helices, 8 β-strands
ElementResiduesLengthSheet
β-strand4-968
α-helix16-249
β-strand41-4338
β-strand52-5768
α-helix65-7410
β-strand77-8378
α-helix87-915
α-helix93-10311
β-strand111-11668
α-helix128-1336
β-strand143-14538
β-strand14719
β-strand15219
α-helix154-16310

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Rap guanine nucleotide exchange factor (GEF) 4Eprotein694Mus musculusA2ASW3
Ras-related protein Rap-1bRprotein167Homo sapiensP61224 (AlphaFold model)
Sequence of entity 1 (E), FASTA
>3CF6_1 Rap guanine nucleotide exchange factor (GEF) 4 (chains E)
GSPESFPDAHMRMILRKPPGQRTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESH
AKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVNDAPRAASIV
LREDNCHFLRVDKEDFNRILRDVEANTVRLKEHDQDVLVLEKVPAGNRAANQGNSQPQQK
YTVMSGTPEKILEHFLETIRLEPSLNEATDSVLNDFVMMHCVFMPNTQLCPALVAHYHAQ
PSQGTEQERMDYALNNKRRVIRLVLQWAAMYGDLLQEDDVAMAFLEEFYVSVSDDARMMA
AFKEQLPELEKIVKQISEDAKAPQKKHKVLLQQFNTGDERAQKRQPIRGSDEVLFKVYCI
DHTYTTIRVPVAASVKEVISAVADKLGSGEGLIIVKMNSGGEKVVLKSNDVSVFTTLTIN
GRLFACPREQFDSLTPLPEQEGPTTGTVGTFELMSSKDLAYQMTTYDWELFNCVHELELI
YHTFGRHNFKKTTANLDLFLRRFNEIQFWVVTEVCLCSQLSKRVQLLKKFIKIAAHCKEY
KNLNSFFAIVMGLSNVAVSRLALTWEKLPSKFKKFYAEFESLMDPSRNHRAYRLTAAKLE
PPLIPFMPLLIKDMTFTHEGNKTFIDNLVNFEKMRMIANTARTVRYYRSQPFNPDAAQAN
KNHQDVRSYVRQLNVIDNQRTLSQMSHRLEPRRP
Sequence of entity 2 (R), FASTA
>3CF6_2 Ras-related protein Rap-1b (chains R)
MREYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDAQQCMLEILDTAG
TEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDL
EDERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQINR

Ligands and cofactors

IDNameFormulaCopies
SP16-(6-amino-purin-9-yl)-2-thioxo-tetrahydro-2-FURO[3,2-D][1,3,2]DIOXAPHOSPHININE…C10 H12 N5 O5 P S2

Water and common crystallization additives (SO4) are not listed.

Primary citation

Structure of Epac2 in complex with a cyclic AMP analogue and RAP1B. Rehmann, H., Arias-Palomo, E., Hadders, M.A. et al. Nature (2008) 455:124-127. DOI 10.1038/nature07187 · PubMed

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