8XGR: ETB-eGt complex

ETB-eGt complex bound to endothelin-1. Determined by electron microscopy at 3.2 Å resolution. Released 3 Apr 2024.

Method: Electron microscopy
Resolution: 3.2 Å
Organisms: Bos taurus, Rattus rattus, Lama glama
Chains: 5
Atoms: 8,206
Mol. weight: 176.85 kDa
Released: 3 Apr 2024

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

Secondary structure: helices and β-sheets

8XGR contains 35 α-helices and 65 β-strands across 5 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 B: 4 helices, 37 β-strands

Element	Residues	Length	Sheet
α-helix	5-25	21
α-helix	30-33	4
α-helix	38-39	2
β-strand	49-51	3	3
β-strand	58-62	5	4
β-strand	69	1	5
β-strand	71-74	4	4
β-strand	78	1	6
β-strand	81-83	3	5
β-strand	88-91	4	5
β-strand	94	1	6
β-strand	104-105	2	7
β-strand	112-115	4	7
β-strand	121-124	4	7
β-strand	129	1	8
β-strand	132	1	8
β-strand	135-139	5	7
β-strand	146-153	8	9
β-strand	156-161	6	9
β-strand	168-170	3	9
β-strand	175-178	4	9
α-helix	186	1
β-strand	187	1	10
β-strand	191-192	2	11
β-strand	198-201	4	11
β-strand	203	1	10
β-strand	208-212	5	11
β-strand	217-222	6	11
β-strand	229	1	12
β-strand	233-234	2	13
β-strand	240-242	3	13
β-strand	245	1	12
β-strand	250-254	5	13
β-strand	259-264	6	13
β-strand	273-277	5	14
β-strand	284-289	6	14
β-strand	295-298	4	14
β-strand	304-307	4	14
β-strand	317-320	4	3
β-strand	327-330	4	3
β-strand	336-339	4	3

Chain G: 12 helices, 9 β-strands

Element	Residues	Length	Sheet
α-helix	13-21	9
α-helix	30-43	14
α-helix	45-47	3
α-helix	88-111	24
β-strand	113-118	6	1
α-helix	126-131	6
β-strand	265-266	2	1
β-strand	269-271	3	1
β-strand	274-280	7	1
α-helix	292-295	4
β-strand	300-303	4	1
β-strand	306	1	2
α-helix	323-334	12
β-strand	343-346	4	1
β-strand	349	1	2
α-helix	351-358	8
α-helix	363-365	3
α-helix	369-371	3
α-helix	377-389	13
β-strand	400-401	2	1
α-helix	411-431	21

Chain L: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	9-17	9

Chain N: 0 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	15
β-strand	11-12	2	16
β-strand	17-25	9	15
β-strand	34	1	17
β-strand	36-39	4	18
β-strand	45-49	5	18
β-strand	68-73	6	15
β-strand	78-84	7	15
β-strand	94	1	19
β-strand	95	1	18
β-strand	97	1	20
β-strand	98	1	17
β-strand	118	1	20
β-strand	122	1	19
β-strand	125-126	2	16

Chain R: 18 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	88-90	3
α-helix	98-128	31
α-helix	130-132	3
α-helix	135-152	18
α-helix	155-163	9
α-helix	173-175	3
α-helix	177-204	28
α-helix	206-209	4
α-helix	216-232	17
α-helix	234-239	6
β-strand	240-242	3	21
β-strand	245-247	3	22
β-strand	250-252	3	22
β-strand	255-257	3	21
α-helix	264-270	7
α-helix	273-276	4
α-helix	277-283	7
α-helix	284-300	17
α-helix	317-349	33
α-helix	358-379	22
α-helix	382-387	6
α-helix	391-401	11

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2,eGt-alpha	G	protein	434	Bos taurus	P04695 (AlphaFold model), P63212 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	374	Rattus rattus	P54311 (AlphaFold model)
Camelid antibody VHH fragment	N	protein	161	Lama glama
Endothelin receptor type B	R	protein	609	Homo sapiens	P24530 (AlphaFold model)
Endothelin-1	L	protein	21	Homo sapiens	P05305

Sequence of entity 1 (G), FASTA

>8XGR_1 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2,eGt-alpha (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAILGSAGSAGSAMGCTLSAEDKAAVERSKMIDRNLREDGEKAARTVKLLLLG
AGESGKSTIVKQMKIIHQDGYSLEECLEFIAIIYGNTLQSILAIVRAMTTLNIQYGDSAR
QDDARKLMHMADTIEEGTMPKEMSDIIQRLWKDSGIQACFDRASEYQLNDSAGYYLSDLE
RLVTPGYVPTEQDVLRSRVKTTGIIETQFSFKDLNFRMFDVGGQRDERRKWIHCFEGVTA
IIFCVALSDYDMVLVEDNQTNRMQESMNLFKSICNNKWFTDTSIILFLNKKDLFEEKIKK
SPLTDYYPEYAGSNTYEEAGNYIKVQFLELNMASDVKEIYSHMTCATDTQNVKFVFDAVT
DIIIKENLKDCGLF

Sequence of entity 2 (B), FASTA

>8XGR_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
GSQLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLA
KIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGG
LDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQ
TTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFP
NGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNV
WDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWNGASGGGSGGNSGSSGG
SSGVSGWRLFKKIS

Sequence of entity 3 (N), FASTA

>8XGR_3 Camelid antibody VHH fragment (chains N)
MKYLLPTAAAGLLLLAAQPAMAMQVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWV
RQAPGKGLQWVSDISQSGASISYTGSVKGRFTISRDDAKNTLYLQMNSLKPADTAVYYCA
RCPAPFTRDCFDVTSTAYAYRGQGTQVTVSSHHHHHHEPEA

Sequence of entity 4 (R), FASTA

>8XGR_4 Endothelin receptor type B (chains R)
EERGFPPDRATPLLQTAEIMTPPTKTLWPKGDYKDDDDKLAPAEVPKGDRTAGSPPRTIS
PPPCQGPIEIKETFKYINTVVSCLVFVLGIIGNSTLLRIIYKNKCMRNGPNILIASLALG
DLLHIVIDIPINVYKLLAEDWPFGAEMCKLVPFIQKASVGITVLSLCALSIDRYRAVASW
SRIKGIGVPKWTAVEIVLIWVVSVVLAVPEAIGFDIITMDYKGSYLRICLLHPVQKTAFM
QFYKTAKDWWLFSFYFCLPLAITAFFYTLMTCEMLRKKSGMQIALNDHLKQRREVAKTVF
CLVLVFALCWLPLHLSRILKLTLYNQNDPNRCELLSFLLVLDYIGINMASLNSCINPIAL
YLVSKRFKNCFKSCLCCWCQSFEEKQSLEEKQSCLKFKANDHGYDNFRSSNKYSSSGSGG
GGSGGSSSGGVFTLEDFVGDWEQTAAYNLDQVLEQGGVSSLLQNLAVSVTPIQRIVRSGE
NALKIDIHVIIPYEGLSADQMAQIEEVFKVVYPVDDHHFKVILPYGTLVIDGVTPNMLNY
FGRPYEGIAVFDGKKITVTGTLWNGNKIIDERLITPDGSMLFRVTINSGGSGGGGSGGSS
SGGLEVLFQ

Sequence of entity 5 (L), FASTA

>8XGR_5 Endothelin-1 (chains L)
CSCSSLMDKECVYFCHLDIIW

Primary citation

Optimizing cryo-EM structural analysis of G i -coupling receptors via engineered G t and Nb35 application. Oshima, H.S., Sano, F.K., Akasaka, H. et al. Biochem Biophys Res Commun (2024) 693:149361-149361. DOI 10.1016/j.bbrc.2023.149361 · PubMed

Other PDB entries of the same protein (UniProt P04695 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1TAD 1.7 Å, Gtpase mechanism of gproteins from the 1.7-Å crystal structure of transducin…
1TAG 1.8 Å, Structural determinants for activation of the alpha-subunit of a heterotrimeric G protein
1GOT 2.0 Å, Heterotrimeric complex of a gt-alpha/gi-alpha chimera and the gt-beta-gamma subunits
1FQJ 2.02 Å, Crystal structure of the heterotrimeric complex of the rgs domain of RGS9, the gamma…
1TND 2.2 Å, The 2.2 Å crystal structure of transducin-alpha complexed with GTP gamma S
1FQK 2.3 Å, Crystal structure of the heterodimeric complex of the rgs domain of RGS9, and the GT/I1…
4J4Q 2.65 Å, Crystal structure of active conformation of GPCR opsin stabilized by octylglucoside
3PQR 2.85 Å, Crystal structure of Metarhodopsin II in complex with a C-terminal peptide derived from…
3V00 2.9 Å, Studies of a constitutively active G-alpha subunit provide insights into the mechanism…
4BEY 2.9 Å, Night blindness causing G90D rhodopsin in complex with GaCT2 peptide
2X72 3.0 Å, Crystal structure of the constitutively active E113Q,D2C,D282C rhodopsin mutant with…
3DQB 3.2 Å, Crystal structure of the active G-protein-coupled receptor opsin in complex with a…

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