9BKJ: PDB entry 9BKJ

Cholecystokinin 1 receptor (CCK1R) Y140A mutant, Gq chimera (mGsqi) complex. Determined by electron microscopy at 2.59 Å resolution. Released 22 May 2024.

Method: Electron microscopy
Resolution: 2.59 Å
Organism: Homo sapiens
Chains: 5
Atoms: 6,795
Mol. weight: 121.76 kDa
Ligands: NH2
Released: 22 May 2024

Explore 9BKJ in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9BKJ contains 32 α-helices and 38 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: 10 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	19-37	19
β-strand	40-47	8	10
α-helix	53-55	3
β-strand	208-214	7	10
β-strand	217-223	7	10
α-helix	234-238	5
β-strand	243-249	7	10
α-helix	266-277	12
α-helix	280-282	3
β-strand	286-292	7	10
α-helix	294-302	9
α-helix	308-311	4
α-helix	313-315	3
α-helix	332-351	20
β-strand	359-363	5	10
α-helix	371-390	20

Chain B: 5 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	3-25	23
α-helix	30-33	4
α-helix	38-39	2
β-strand	47-51	5	1
β-strand	58-63	6	2
β-strand	69-74	6	2
β-strand	78-83	6	2
β-strand	88-94	7	2
α-helix	95	1
β-strand	100-105	6	3
β-strand	111-116	6	3
β-strand	120-125	6	3
β-strand	134-140	7	3
β-strand	146-151	6	4
β-strand	156-161	6	4
β-strand	166-170	5	4
β-strand	175-180	6	4
β-strand	187-192	6	5
β-strand	198-203	6	5
β-strand	208-212	5	5
β-strand	218-222	5	5
β-strand	229-234	6	6
β-strand	240-245	6	6
β-strand	250-254	5	6
β-strand	259-264	6	6
α-helix	272	1
β-strand	273-278	6	7
β-strand	284-289	6	7
β-strand	294-298	5	7
β-strand	304-307	4	7
β-strand	315-320	6	1
β-strand	327-331	5	1
β-strand	336-339	4	1

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	7-23	17
α-helix	30-43	14
α-helix	53-55	3

Chain R: 14 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	39-68	30
α-helix	75-103	29
α-helix	111-144	34
α-helix	148-150	3
α-helix	155-172	18
α-helix	175-179	5
β-strand	180-181	2	8
β-strand	185-186	2	9
β-strand	192-193	2	9
β-strand	197-198	2	8
α-helix	203-213	11
α-helix	214-219	6
α-helix	220-237	18
α-helix	306-338	33
α-helix	340-347	8
α-helix	350-367	18
α-helix	368-372	5
α-helix	375-384	10

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	340	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	58	Homo sapiens	P59768 (AlphaFold model)
Cholecystokinin-8	P	protein	8	Homo sapiens	P06307 (AlphaFold model)
Cholecystokinin receptor type A	R	protein	427	Homo sapiens	P32238 (AlphaFold model)
Guanine nucleotide-binding protein G(i) subunit alpha-1,Guanine nucleotide-binding protein G(s)…	A	protein	253	Homo sapiens	P63092, P63096

Sequence of entity 1 (B), FASTA

>9BKJ_1 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
QSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYA
MHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNI
CSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTF
TGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNA
FATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDAL
KADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 2 (G), FASTA

>9BKJ_2 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
NTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFR

Sequence of entity 3 (P), FASTA

>9BKJ_3 Cholecystokinin-8 (chains P)
DYMGWMDF

Sequence of entity 4 (R), FASTA

>9BKJ_4 Cholecystokinin receptor type A (chains R)
DVVDSLLVNGSNITPPCELGLENETLFCLDQPRPSKEWQPAVQILLYSLIFLLSVLGNTL
VITVLIRNKRMRTVTNIFLLSLAVSDLMLCLFCMPFNLIPNLLKDFIFGSAVCKTTTYFM
GTSVSVSTFNLVAISLERAGAICKPLQSRVWQTKSHALKVIAATWCLSFTIMTPYPIYSN
LVPFTKNNNQTANMCRFLLPNDVMQQSWHTFLLLILFLIPGIVMMVAYGLISLELYQGIK
FEASQKKSAKERKPSTTSSGKYEDSDGCYLQKTRPPRKLELRQLSTGSSSRANRIRSNSS
AANLMAKKRVIRMLIVIVVLFFLCWMPIFSANAWRAYDTASAERRLSGTPISFILLLSYT
SSCVNPIIYCFMNKRFRLGFMATFPCCPNPGPPGARGEVGEEEEGGTTGASLSRFSYSHM
SASVPPQ

Sequence of entity 5 (A), FASTA

>9BKJ_5 Guanine nucleotide-binding protein G(i) subunit alpha-1,Guanine nucleotide-binding protein G(s) subunit alpha isoforms short (chains A)
HHHHHHHHGCTLSAEDKAAVERSKMIDRNLREDGEKARRTLRLLLLGADNSGKSTIVKQM
RILHGGSGGSGGTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVDSS
DYNRLQEALNDFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTP
EDATPEPGEDPRVTRAKYFIRKEFVDISTASGDGRHICYPHFTCAVDTENARRIFNDCKD
IILQMNLREYNLV

Ligands and cofactors

ID	Name	Formula	Copies
NH2	Amino group	H2 N	1

Primary citation

Cholesterol-dependent dynamic changes in the conformation of the type 1 cholecystokinin receptor affect ligand binding and G protein coupling. Harikumar, K.G., Zhao, P., Cary, B.P. et al. PLoS Biol (2024) 22:e3002673-e3002673. DOI 10.1371/journal.pbio.3002673 · PubMed

Other PDB entries of the same protein (UniProt P62873 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8QEH 1.43 Å, Crystal structure of the G11 protein heterotrimer bound to FR900359 inhibitor
8QEG 1.7 Å, Crystal structure of the G11 protein heterotrimer bound to YM-254890 inhibitor
8F0K 1.9 Å, Human Amylin3 Receptor in complex with Gs and Pramlintide analogue peptide San385
9YDQ 1.94 Å, Human delta opioid receptor complex with mini-Gi and agonist DADLE and allosteric…
9YDP 1.95 Å, Human delta opioid receptor complex with mini-Gi and agonist DADLE
6CRK 2.0 Å, Heterotrimeric G-protein in complex with an antibody fragment
8F0J 2.0 Å, Calcitonin Receptor in complex with Gs and Pramlintide analogue peptide San45
8F2B 2.0 Å, Amylin 3 Receptor in complex with Gs and Pramlintide analogue peptide San45
9XXT 2.0 Å, Cryo-EM structure of lysophosphatidylserine (18:0)-bound GPR174-Gs complex
6X18 2.1 Å, GLP-1 peptide hormone bound to Glucagon-Like peptide-1 (GLP-1) Receptor
6X19 2.1 Å, Non peptide agonist CHU-128, bound to Glucagon-Like peptide-1 (GLP-1) Receptor
9NTU 2.1 Å, Cryo-EM structure of BETP-GLP-1(9-36)-GLP-1R-Gs complex

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