7D3S: Human SECR

Human SECR in complex with an engineered Gs heterotrimer. Determined by electron microscopy at 2.9 Å resolution. Released 4 Nov 2020.

Method: Electron microscopy
Resolution: 2.9 Å
Organisms: Homo sapiens, Rattus norvegicus, Bos taurus
Chains: 6
Atoms: 8,338
Mol. weight: 158.35 kDa
Released: 4 Nov 2020

Explore 7D3S in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7D3S contains 33 α-helices and 46 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	15-39	25
β-strand	40-46	7	1
α-helix	53-59	7
β-strand	208-214	7	1
β-strand	217-223	7	1
α-helix	234-238	5
β-strand	243-249	7	1
α-helix	253-267	15
β-strand	276-282	7	1
α-helix	284-293	10
α-helix	298-301	4
α-helix	316-317	2
α-helix	322-342	21
β-strand	349-353	5	1
α-helix	362-380	19

Chain B: 4 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	2-23	22
α-helix	30-33	4
α-helix	38-39	2
β-strand	47-51	5	2
β-strand	58-63	6	3
β-strand	69-74	6	3
β-strand	78-83	6	3
β-strand	88-94	7	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	135-139	5	4
β-strand	146-151	6	5
β-strand	157-161	5	5
β-strand	166-170	5	5
β-strand	175-180	6	5
β-strand	187-192	6	6
β-strand	198-203	6	6
β-strand	207-212	6	6
β-strand	218-223	6	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	318-320	3	2
β-strand	327-329	3	2
β-strand	336-339	4	2

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	7-20	14
α-helix	30-43	14
α-helix	54-55	2

Chain N: 3 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	9
β-strand	11-12	2	10
β-strand	18-25	8	9
α-helix	29-31	3
β-strand	34-39	6	11
β-strand	46-51	6	11
β-strand	58-60	3	11
β-strand	68-73	6	9
α-helix	74-76	3
β-strand	78-83	6	9
α-helix	88-90	3
β-strand	92-98	7	11
β-strand	118	1	11
β-strand	122-124	3	11
β-strand	125-126	2	10

Chain P: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-26	25

Chain R: 13 helices, 0 β-strands

Element	Residues	Length
α-helix	133-165	33
α-helix	168-170	3
α-helix	174-199	26
α-helix	212-245	34
α-helix	251-280	30
α-helix	292-326	35
α-helix	334-345	12
α-helix	348-351	4
α-helix	366-372	7
α-helix	373-377	5
α-helix	380-385	6
α-helix	386-390	5
α-helix	393-404	12

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Secretin	P	protein	27	Homo sapiens	P09683 (AlphaFold model)
Secretin receptor	R	protein	434	Homo sapiens	P47872 (AlphaFold model)
Guanine nucleotide-binding protein G(s) subunit alpha isoforms short	A	protein	380	Homo sapiens	P63092 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	351	Rattus norvegicus	P54311 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	68	Bos taurus	P63212
nanobody Nb35	N	protein	137	unidentified

Sequence of entity 1 (P), FASTA

>7D3S_1 Secretin (chains P)
HSDGTFTSELSRLREGARLQRLLQGLV

Sequence of entity 2 (R), FASTA

>7D3S_2 Secretin receptor (chains R)
DYKDDDDAMGHSTGALPRLCDVLQVLWEEQDQCLQELSREQTGDLGTEQPVPGCEGMWDN
ISCWPSSVPGRMVEVECPRFLRMLTSRNGSLFRNCTQDGWSETFPRPNLACGVNVNDSSN
EKRHSYLLKLKVMYTVGYSSSLVMLLVALGILCAFRRLHCTRNYIHMHLFVSFILRALSN
FIKDAVLFSSDDVTYCDAHRAGCKLVMVLFQYCIMANYSWLLVEGLYLHTLLAISFFSER
KYLQGFVAFGWGSPAIFVALWAIARHFLEDVGCWDINANASIWWIIRGPVILSILINFIL
FINILRILMRKLRTQETRGNEVSHYKRLARSTLLLIPLFGIHYIVFAFSPEDAMEIQLFF
ELALGSFQGLVVAVLYCFLNGEVQLEVQKKWQQWHLREFPLHPVASFSNSTKASHLEQSQ
GTCRTSIIENLYFG

Sequence of entity 3 (A), FASTA

>7D3S_3 Guanine nucleotide-binding protein G(s) subunit alpha isoforms short (chains A)
GNSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGADNSGKSTIVKQMRIYH
VNGFNGEGGEEDPQAARSNSDGEKATKVQDIKNNLKEAIETIVAAMSNLVPPVELANPEN
QFRVDYILSVMNVPDFDFPPEFYEHAKALWEDEGVRACYERSNEYQLIDCAQYFLDKIDV
IKQADYVPSDQDLLRCRVLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAI
IFVVDSSDYNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPE
FARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENARR
IFNDCRDIIQRMHLRQYELL

Sequence of entity 4 (B), FASTA

>7D3S_4 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRR
TLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSG
NYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALW
DIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDI
NAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGY
DDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 5 (G), FASTA

>7D3S_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFS

Sequence of entity 6 (N), FASTA

>7D3S_6 nanobody Nb35 (chains N)
MGQVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASI
SYTGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYR
GQGTQVTVSSLHHHHHH

Primary citation

Structure of the human secretin receptor coupled to an engineered heterotrimeric G protein. Fukuhara, S., Kobayashi, K., Kusakizako, T. et al. Biochem Biophys Res Commun (2020) 533:861-866. DOI 10.1016/j.bbrc.2020.08.042 · PubMed

Other PDB entries of the same protein (UniProt P09683 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6WZG 2.3 Å, Human secretin receptor Gs complex
6WI9 4.3 Å, Human secretin receptor Gs complex

Browse structure collections

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