8WP1: SUCR1

Cryo-EM structure of SUCR1 in complex with cis-epoxysuccinic acid and Gi proteins. Determined by electron microscopy at 3.15 Å resolution. Released 11 Sept 2024.

Method: Electron microscopy
Resolution: 3.15 Å
Organism: Homo sapiens
Chains: 4
Atoms: 7,326
Mol. weight: 118.99 kDa
Ligands: U9S
Released: 11 Sept 2024

Explore 8WP1 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8WP1 contains 36 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: 19 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	12-20	9
α-helix	21-25	5
α-helix	26-49	24
α-helix	57-74	18
α-helix	77-81	5
α-helix	92-120	29
α-helix	132-134	3
α-helix	136-154	19
α-helix	155-157	3
α-helix	158-161	4
β-strand	164-166	3	1
β-strand	169-171	3	1
α-helix	175-177	3
α-helix	181-192	12
α-helix	193-197	5
α-helix	198-218	21
α-helix	229-258	30
α-helix	272-284	13
α-helix	286-292	7
α-helix	293-297	5
α-helix	300-310	11

Chain C: 9 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	7-30	24
β-strand	33-40	8	2
α-helix	48-52	5
β-strand	185-190	6	2
β-strand	195-200	6	2
α-helix	208-210	3
α-helix	212-215	4
β-strand	220-226	7	2
β-strand	233	1	3
β-strand	241	1	3
α-helix	242-254	13
β-strand	263-269	7	2
α-helix	274-278	5
α-helix	283-285	3
α-helix	296-308	13
β-strand	319-322	4	2
α-helix	331-350	20

Chain D: 4 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	4-23	20
α-helix	33-35	3
α-helix	38-39	2
β-strand	47-51	5	4
β-strand	58-62	5	5
β-strand	71-74	4	5
β-strand	78-82	5	5
β-strand	89-94	6	5
β-strand	100-105	6	6
β-strand	111-116	6	6
β-strand	121-125	5	6
β-strand	134-139	6	6
β-strand	146-151	6	7
β-strand	157-161	5	7
β-strand	165-169	5	7
β-strand	176-181	6	7
β-strand	187-192	6	8
β-strand	198-203	6	8
β-strand	207-212	6	8
β-strand	218-223	6	8
β-strand	229-234	6	9
β-strand	240-245	6	9
β-strand	250-254	5	9
β-strand	259-264	6	9
α-helix	272	1
β-strand	273-278	6	10
β-strand	284-289	6	10
β-strand	294-298	5	10
β-strand	303-308	6	10
β-strand	317-320	4	4
β-strand	327-330	4	4
β-strand	336-339	4	4

Chain E: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	11-22	12
α-helix	28-29	2
α-helix	34-43	10
α-helix	53-55	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Succinate receptor 1	A	protein	304	Homo sapiens	Q9BXA5 (AlphaFold model)
Guanine nucleotide-binding protein G(i) subunit alpha-1	C	protein	353	Homo sapiens	P63096 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	D	protein	338	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	E	protein	56	Homo sapiens	P59768 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>8WP1_1 Succinate receptor 1 (chains A)
ATCKNWLAAEAALEKYYLSIFYGIEFVVGVLGNTIVVYGYIFSLKNWNSSNIYLFNLSVS
DLAFLCTLPMLIRSYANGNWIYGDVLCISNRYVLHANLYTSILFLTFISIDRYLIIKYPF
REHLLQKKEFAILISLAIWVLVTLELLPILPLINPVITDNGTTCNDFASSGDPNYNLIYS
MCLTLLGFLIPLFVMCFFYYKIALFLKQRNRQVATALPLEKPLNLVIMAVVIFSVLFTPY
HVMRNVRIASRLGSWKQYQCTQVVINSFYIVTRPLAFLNSVINPVFYFLLGDHFRDMLMN
QLRH

Sequence of entity 2 (C), FASTA

>8WP1_2 Guanine nucleotide-binding protein G(i) subunit alpha-1 (chains C)
GCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKSTIVKQMKIIHEAGY
SEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMTA
ELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKT
TGIVETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMN
RMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAA
YIQCQFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 3 (D), FASTA

>8WP1_3 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains D)
ELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYAMH
WGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNICS
IYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTFTG
HTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNAFA
TGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDALKA
DRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 4 (E), FASTA

>8WP1_4 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains E)
SIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFRE

Ligands and cofactors

ID	Name	Formula	Copies
U9S	(2R,3S)-oxirane-2,3-dicarboxylic acid	C4 H4 O5	1

Primary citation

Structural insights into ligand recognition and activation of the succinate receptor SUCNR1. Liu, A., Liu, Y., Zhang, W. et al. Cell Rep (2024) 43:114381-114381. DOI 10.1016/j.celrep.2024.114381 · PubMed

Other PDB entries of the same protein (UniProt Q9BXA5 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8YKV 2.48 Å, Cryo-EM structure of succinate receptor SUCR1 bound to compound 31
8YKX 2.69 Å, Cryo-EM structure of succinate receptor SUCR1 bound to maleic acid
8YKW 2.75 Å, Cryo-EM structure of succinate receptor SUCR1 bound to succinic acid
8JPN 2.9 Å, Cryo-EM structure of succinate receptor bound to cis-epoxysuccinic acid coupling to Gi
8WOG 2.97 Å, Cryo-EM structure of SUCR1 in complex with succinate and Gi protein
8JPP 3.2 Å, Cryo-EM structure of succinate receptor bound to succinate acid coupling MiniGsq

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