7D68: PDB entry 7D68
Cryo-EM structure of the human glucagon-like peptide-2 receptor-Gs protein complex. Determined by electron microscopy at 3.0 Å resolution. Released 16 Dec 2020.
- Method
- Electron microscopy
- Resolution
- 3.0 Å
- Organisms
- Bos taurus, synthetic construct, Homo sapiens
- Chains
- 6
- Atoms
- 8,564
- Mol. weight
- 185 kDa
- Released
- 16 Dec 2020
Explore 7D68 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
7D68 contains 30 α-helices and 45 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: 9 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 13-37 | 25 | |
| β-strand | 41-46 | 6 | 1 |
| α-helix | 53-59 | 7 | |
| β-strand | 207-214 | 8 | 1 |
| β-strand | 217-224 | 8 | 1 |
| α-helix | 236-238 | 3 | |
| β-strand | 243-249 | 7 | 1 |
| α-helix | 265-277 | 13 | |
| α-helix | 285 | 1 | |
| β-strand | 286-292 | 7 | 1 |
| α-helix | 294-298 | 5 | |
| α-helix | 313-317 | 5 | |
| α-helix | 332-350 | 19 | |
| β-strand | 362-363 | 2 | 1 |
| α-helix | 371-390 | 20 | |
Chain B: 3 helices, 28 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 4-23 | 20 | |
| α-helix | 30-33 | 4 | |
| β-strand | 47-52 | 6 | 2 |
| β-strand | 58-63 | 6 | 3 |
| β-strand | 69-74 | 6 | 3 |
| β-strand | 78-83 | 6 | 3 |
| β-strand | 89-94 | 6 | 3 |
| α-helix | 95 | 1 | |
| β-strand | 100-105 | 6 | 4 |
| β-strand | 111-116 | 6 | 4 |
| β-strand | 121-125 | 5 | 4 |
| β-strand | 134-139 | 6 | 4 |
| β-strand | 146-151 | 6 | 5 |
| β-strand | 156-161 | 6 | 5 |
| β-strand | 166-170 | 5 | 5 |
| β-strand | 176-180 | 5 | 5 |
| β-strand | 187-192 | 6 | 6 |
| β-strand | 198-203 | 6 | 6 |
| β-strand | 208-212 | 5 | 6 |
| β-strand | 218-222 | 5 | 6 |
| β-strand | 229-234 | 6 | 7 |
| β-strand | 240-245 | 6 | 7 |
| β-strand | 250-254 | 5 | 7 |
| β-strand | 259-264 | 6 | 7 |
| β-strand | 273-278 | 6 | 8 |
| β-strand | 284-289 | 6 | 8 |
| β-strand | 294-298 | 5 | 8 |
| β-strand | 304-308 | 5 | 8 |
| β-strand | 315-320 | 6 | 2 |
| β-strand | 327-331 | 5 | 2 |
| β-strand | 335-339 | 5 | 2 |
Chain G: 3 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 9-23 | 15 | |
| α-helix | 30-43 | 14 | |
| α-helix | 54-55 | 2 | |
Chain N: 2 helices, 11 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 3-7 | 5 | 9 |
| β-strand | 10-11 | 2 | 10 |
| β-strand | 17-25 | 9 | 9 |
| α-helix | 29-31 | 3 | |
| β-strand | 34-39 | 6 | 10 |
| β-strand | 45-51 | 7 | 10 |
| β-strand | 58-60 | 3 | 10 |
| β-strand | 68-73 | 6 | 9 |
| β-strand | 78-84 | 7 | 9 |
| α-helix | 88-90 | 3 | |
| β-strand | 92-98 | 7 | 10 |
| β-strand | 118 | 1 | 10 |
| β-strand | 123-125 | 3 | 10 |
Chain P: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-28 | 26 | |
Chain R: 12 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 167-202 | 36 | |
| α-helix | 209-238 | 30 | |
| α-helix | 253-256 | 4 | |
| α-helix | 259-287 | 29 | |
| α-helix | 303-307 | 5 | |
| α-helix | 312-324 | 13 | |
| α-helix | 341-370 | 30 | |
| α-helix | 376-394 | 19 | |
| α-helix | 399-403 | 5 | |
| α-helix | 412-433 | 22 | |
| α-helix | 434-438 | 5 | |
| α-helix | 441-451 | 11 | |
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | A | protein | 378 | Bos taurus | P04896 (AlphaFold model), P63097 (AlphaFold model) |
| Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | B | protein | 371 | Bos taurus | P62871 (AlphaFold model) |
| Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | G | protein | 71 | Bos taurus | P63212 (AlphaFold model) |
| Nanobody-35 | N | protein | 126 | synthetic construct | |
| Pro-glucagon | P | protein | 33 | Homo sapiens | P01275 |
| Glucagon-like peptide 2 receptor | R | protein | 664 | Homo sapiens | O95838 |
Sequence of entity 1 (A), FASTA
>7D68_1 Guanine nucleotide-binding protein G(s) subunit alpha isoforms short (chains A)
MGCLGNSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGAGESGKSTIVKQM
RILHVNGYSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGA
AEEGFMTAELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQD
VLRTRVKTTGIFETKFQVDKVNFHMFDVGAQRDERRKWIQCFNDVTAIIFVVASSSYNMV
IREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFA
RYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCSVDTENIRRVF
NDCRDIIQRMHLRQYELL
Sequence of entity 2 (B), FASTA
>7D68_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHL
AKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACG
GLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQ
QTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFF
PNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCN
VWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWNGSSGGGGSGGGGSSG
VSGWRLFKKIS
Sequence of entity 3 (G), FASTA
>7D68_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL
Sequence of entity 4 (N), FASTA
>7D68_4 Nanobody-35 (chains N)
QVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASISY
TGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYRGQ
GTQVTV
Sequence of entity 5 (P), FASTA
>7D68_5 Pro-glucagon (chains P)
HADGSFSDEMNTILDNLAARDFINWLIQTKITD
Sequence of entity 6 (R), FASTA
>7D68_6 Glucagon-like peptide 2 receptor (chains R)
MKTIIALSYIFCLVFAMKLGSSRAGPGRGSAGLLPGVHELPMGIPAPWGTSPLSFHRKCS
LWAPGRPFLTLVLLVSIKQVTGSLLEETTRKWAQYKQACLRDLLKEPSGIFCNGTFDQYV
CWPHSSPGNVSVPCPSYLPWWSEESSGRAYRHCLAQGTWQTIENATDIWQDDSECSENHS
FKQNVDRYALLSTLQLMYTVGYSFSLISLFLALTLLLFLRKLHCTRNYIHMNLFASFILR
TLAVLVKDVVFYNSYSKRPDNENGWMSYLSEMSTSCRSVQVLLHYFVGANYLWLLVEGLY
LHTLLEPTVLPERRLWPRYLLLGWAFPVLFVVPWGFARAHLENTGCWTTNGNKKIWWIIR
GPMMLCVTVNFFIFLKILKLLISKLKAHQMCFRDYKYRLAKSTLVLIPLLGVHEILFSFI
TDDQVEGFAKLIRLFIQLTLSSFHGFLVALQYGFANGEVKAELRKYWVRFLLARHSGCRA
CVLGKDFRFLGKCPKKLSEGDGAEKLVFTLEDFVGDWEQTAAYNLDQVLEQGGVSSLLQN
LAVSVTPIQRIVRSGENALKIDIHVIIPYEGLSADQMAQIEEVFKVVYPVDDHHFKVILP
YGTLVIDGVTPNMLNYFGRPYEGIAVFDGKKITVTGTLWNGNKIIDERLITPDGSMLFRV
TINS
Primary citation
A unique hormonal recognition feature of the human glucagon-like peptide-2 receptor. Sun, W., Chen, L.N., Zhou, Q. et al. Cell Res (2020) 30:1098-1108. DOI 10.1038/s41422-020-00442-0 · PubMed
Other PDB entries of the same protein (UniProt P04896 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 1AZS 2.3 Å, Complex of gs-alpha with the catalytic domains of mammalian adenylyl cyclase
- 1AZT 2.3 Å, Gs-alpha complexed with GTP-gamma-S
- 9IJE 2.34 Å, Epinephrine-activated human beta3 adrenergic receptor
- 1CUL 2.4 Å, Complex of gs-alpha with the catalytic domains of mammalian adenylyl cyclase: complex…
- 1CS4 2.5 Å, Complex of gs-alpha with the catalytic domains of mammalian adenylyl cyclase: complex…
- 8DCS 2.5 Å, Cryo-EM structure of cyanopindolol-bound beta1-adrenergic receptor in complex with…
- 7JJO 2.6 Å, Structural Basis of the Activation of Heterotrimeric Gs-protein by Isoproterenol-bound…
- 8DCR 2.6 Å, Cryo-EM structure of dobutamine-bound beta1-adrenergic receptor in complex with…
- 7X8R 2.61 Å, Cryo-EM structure of the Boc5-bound hGLP-1R-Gs complex
- 3C14 2.68 Å, Complex of GS-Alpha with the Catalytic Domains of Mammalian Adenylyl Cyclase: Complex…
- 7VQX 2.74 Å, Cryo-EM structure of human vasoactive intestinal polypeptide receptor 2 (VIP2R) in…
- 8X9T 2.75 Å, Identification, structure and agonist design of an androgen membrane receptor
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