8JBG: Neurokinin B

Neurokinin B bound to active human neurokinin 3 receptor in complex with Gq. Determined by electron microscopy at 2.8 Å resolution. Released 7 Feb 2024.

Method
Electron microscopy
Resolution
2.8 Å
Organisms
Homo sapiens, Rattus norvegicus, Mus musculus
Chains
6
Atoms
8,750
Mol. weight
282.62 kDa
Released
7 Feb 2024

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

Secondary structure: helices and β-sheets

8JBG contains 36 α-helices and 61 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: 17 helices, 2 β-strands

ElementResiduesLengthSheet
α-helix82-11231
α-helix119-1213
α-helix122-13413
α-helix135-1395
α-helix140-1467
α-helix155-1606
α-helix164-18825
α-helix197-22024
β-strand224-22521
α-helix231-2322
β-strand233-23421
α-helix240-25213
α-helix253-2575
α-helix258-27417
α-helix291-32434
α-helix327-3304
α-helix334-34613
α-helix348-35912
α-helix361-3677
Chain C: 8 helices, 7 β-strands
ElementResiduesLengthSheet
α-helix9-3224
β-strand34-40714
α-helix46-516
β-strand184-190714
β-strand195-201714
α-helix211-2155
β-strand220-226714
α-helix233-24412
β-strand253-259714
α-helix261-2699
α-helix275-2773
α-helix299-31820
β-strand326114
β-strand330114
α-helix338-35720
Chain D: 2 helices, 28 β-strands
ElementResiduesLengthSheet
α-helix4-2522
α-helix30-345
β-strand47-5152
β-strand58-6363
β-strand69-7463
β-strand78-8363
β-strand88-9473
β-strand100-10564
β-strand111-11664
β-strand121-12554
β-strand134-13964
β-strand146-15165
β-strand156-16165
β-strand166-17055
β-strand175-18065
β-strand187-19266
β-strand198-20366
β-strand208-21256
β-strand218-22256
β-strand229-23467
β-strand240-24567
β-strand250-25457
β-strand259-26467
β-strand273-27868
β-strand284-28968
β-strand294-29858
β-strand304-30858
β-strand315-32062
β-strand327-33152
β-strand336-33942
Chain E: 6 helices, 24 β-strands
ElementResiduesLengthSheet
β-strand3-759
β-strand10-12310
β-strand18-2589
α-helix29-313
β-strand33-39710
β-strand45-51710
β-strand58-60310
β-strand68-7369
β-strand78-8369
α-helix88-903
β-strand92-99810
β-strand110-111210
β-strand115-119510
α-helix137-1393
β-strand140-142311
β-strand146-148312
β-strand155-161711
β-strand166113
β-strand172113
β-strand174-179612
β-strand185-190612
β-strand194-195212
α-helix1961
β-strand203-207511
β-strand211-216611
α-helix221-2233
β-strand226-231612
α-helix2371
β-strand239112
β-strand243-246412
Chain G: 3 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix9-2214
α-helix30-4314
α-helix53-553

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Neuromedin-K receptor (NK3R-pFastbac1)Bprotein1428Homo sapiensP29371 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1Dprotein377Rattus norvegicusP54311 (AlphaFold model)
ScFv16 nanobodyEprotein304Mus musculus
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2Gprotein71Bos taurusP63212 (AlphaFold model)
Neurokinin-BAprotein10Homo sapiensQ9UHF0 (AlphaFold model)
Guanine nucleotide-binding protein Gq (G324)Cprotein361Homo sapiens
Sequence of entity 1 (B), FASTA
>8JBG_1 Neuromedin-K receptor (NK3R-pFastbac1) (chains B)
MKTIIALSYIFCLVFAADLEDNWETLNDNLKVIEKADNAAQVKDALTKMRAAALDAQKAT
PPKLEDKSPDSPEMKDFRHGFDILVGQIDDALKLANEGKVKEAQAAAEQLKTTRNAYIQK
YLMATLPAAETWIDGGGGVGADAVNLTASLAAGAATGAVETGWLQLLDQAGNLSSSPSAL
GLPVASPAPSQPWANLTNQFVQPSWRIALWSLAYGVVVAVAVLGNLIVIWIILAHKRMRT
VTNYFLVNLAFSDASMAAFNTLVNFIYALHSEWYFGANYCRFQNFFPITAVFASIYSMTA
IAVDRYMAIIDPLKPRLSATATKIVIGSIWILAFLLAFPQCLYSKTKVMPGRTLCFVQWP
EGPKQHFTYHIIVIILVYCFPLLIMGITYTIVGITLWGGEIPGDTCDKYHEQLKAKRKVV
KMMIIVVMTFAICWLPYHIYFILTAIYQQLNRWKYIQQVYLASFWLAMSSTMYNPIIYCC
LNKRFRAGFKRAFRWCPFIKVSSYDELELKTTRFHPVFTLEDFVGDWEQTAAYNLDQVLE
QGGVSSLLQNLAVSVTPIQRIVRSGENALKIDIHVIIPYEGLSADQMAQIEEVFKVVYPV
DDHHFKVILPYGTLVIDGVTPNMLNYFGRPYEGIAVFDGKKITVTGTLWNGNKIIDERLI
TPDGSMLFRVTINSGGSENLYFQGGSAGSAAKIEEGKLVIWINGDKGYNGLAEVGKKFEK
DTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKL
YPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMF
NLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTD
YSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAA
SPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEI
MPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQTAKIEEGKLVIWINGDKGYNGLAE
VGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPD
KAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAK
GKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNK
HMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVL
SAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATME
NAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQTRITK
Sequence of entity 2 (D), FASTA
>8JBG_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains D)
HMHHHHHGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRR
TLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSG
NYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALW
DIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDI
NAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGY
DDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWNGSSGGGGSG
GGGSSGVSGWRLFKKIS
Sequence of entity 3 (E), FASTA
>8JBG_3 ScFv16 nanobody (chains E)
MLLVNQSHQGFNKEHTSKMVSAIVLYVLLAAAAHSAFAVQLVESGGGLVQPGGSRKLSCS
ASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYYADTVKGRFTISRDDPKNTLFLQM
TSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVSAGGGGSGGGGSGGGGSSDIVMTQ
ATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQRPGQSPQLLIYRMSNLASGVPDR
FSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFGAGTKLELVDENLYFQGASHHHH
HHHH
Sequence of entity 4 (G), FASTA
>8JBG_4 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL
Sequence of entity 5 (A), FASTA
>8JBG_5 Neurokinin-B (chains A)
DMHDFFVGLM
Sequence of entity 6 (C), FASTA
>8JBG_6 Guanine nucleotide-binding protein Gq (G324) (chains C)
MGCTLSAEDKAAVERSKMIEKQLQKDKQVYRRTLRLLLLGADNSGKSTIVKQMRIYHVNG
YSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMT
AELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVK
TSGIFETKFQVDKVNFHMFDVGAQRDERRKWIQCFNDVTAIIFVVDSSDYNRLQEALNDF
DSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPR
VTRAKYFIRKEFVDISTASGDGRHICYPHFTCAVDTENARRIFNDCKDIILQMNLREYNL
V

Primary citation

Structural insights into neurokinin 3 receptor activation by endogenous and analogue peptide agonists. Sun, W., Yang, F., Zhang, H. et al. Cell Discov (2023) 9:66-66. DOI 10.1038/s41421-023-00564-w · PubMed

Other PDB entries of the same protein (UniProt P29371 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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