9MV0: HKU5 spike C-terminal domain

Structure of HKU5 spike C-terminal domain in complex with ACE2 from Pipistrellus abramus. Determined by electron microscopy at 4.2 Å resolution. Released 30 Jul 2025.

Method
Electron microscopy
Resolution
4.2 Å
Organisms
Pipistrellus abramus, Pipistrellus bat coronavirus HKU5
Chains
4
Atoms
14,631
Mol. weight
488.84 kDa
Ligands
NAG
Released
30 Jul 2025

Explore 9MV0 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9MV0 contains 93 α-helices and 49 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: 37 helices, 13 β-strands

ElementResiduesLengthSheet
α-helix23-5230
α-helix56-8025
α-helix91-10010
α-helix104-1074
α-helix110-12819
β-strand132-13321
β-strand141-14221
α-helix144-15310
α-helix157-17317
α-helix176-19217
α-helix198-2036
α-helix220-24728
β-strand261-26222
α-helix263-2653
α-helix275-2773
α-helix278-2814
α-helix293-2997
α-helix303-31513
α-helix319-3235
α-helix324-3285
β-strand33113
β-strand346-34943
β-strand355-35843
α-helix365-38218
α-helix399-41113
α-helix414-4196
α-helix433-44513
α-helix448-46417
α-helix469-4713
α-helix472-48211
β-strand486-48722
α-helix498-5014
α-helix504-5074
α-helix513-53220
α-helix538-5403
α-helix548-55811
α-helix560-5623
α-helix565-5728
α-helix581-5866
α-helix588-5958
β-strand61614
α-helix623-6264
α-helix638-65215
α-helix653-6575
β-strand66815
β-strand67416
β-strand67816
β-strand68114
β-strand68315
α-helix695-70410
Chain B: 9 helices, 12 β-strands
ElementResiduesLengthSheet
α-helix394-3963
α-helix400-4023
β-strand41717
α-helix419-4257
β-strand430-43348
α-helix439-4424
β-strand44619
β-strand448-45698
α-helix461-4644
α-helix471-4744
β-strand485-49068
β-strand504-5131010
β-strand521110
α-helix534-5385
β-strand546-549410
β-strand552-560910
β-strand566-57498
α-helix5811
β-strand58219
α-helix5831
β-strand58417
Chain C: 39 helices, 11 β-strands
ElementResiduesLengthSheet
α-helix23-3311
α-helix40-5213
α-helix56-8025
α-helix91-10010
α-helix104-1074
α-helix110-12819
β-strand132111
β-strand142111
α-helix144-15310
α-helix157-17317
α-helix176-19217
α-helix198-2036
α-helix218-24730
β-strand261-262212
α-helix263-2653
α-helix275-2773
α-helix278-2814
α-helix293-2997
α-helix303-31614
α-helix319-3235
α-helix324-3274
β-strand331113
β-strand346-351613
β-strand354-358513
α-helix365-38319
α-helix389-3913
α-helix399-41113
α-helix414-4196
α-helix433-44513
α-helix448-46417
α-helix469-4713
α-helix472-48211
β-strand486-487212
α-helix498-5014
α-helix505-5073
α-helix513-53220
α-helix538-5403
α-helix548-55811
α-helix560-5623
α-helix565-5728
α-helix581-5866
α-helix588-5947
β-strand618114
α-helix622-6265
α-helix637-65216
α-helix653-6575
β-strand668115
β-strand679114
β-strand683115
α-helix695-70410
Chain D: 8 helices, 13 β-strands
ElementResiduesLengthSheet
α-helix394-3963
α-helix400-4023
β-strand417116
α-helix419-4257
β-strand430-433417
α-helix439-4424
β-strand446118
β-strand448119
β-strand451-455517
α-helix461-4644
α-helix471-4744
β-strand485-490617
α-helix500-5023
β-strand504-5131020
α-helix534-5385
β-strand546-549420
β-strand552-560920
β-strand567-572617
β-strand574119
β-strand582118
β-strand584116

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Angiotensin-converting enzymeA, Cprotein803Pipistrellus abramusC7ECT9 (AlphaFold model)
Spike glycoproteinB, Dprotein1352Pipistrellus bat coronavirus HKU5A3EXD0 (AlphaFold model)
Sequence of entity 1 (A, C), FASTA
>9MV0_1 Angiotensin-converting enzyme (chains A, C)
MSSSSWLLLSLVAVAGAQYTTEEEARRFLVKFNHEAENLSHESALASWDYNTNITDENAK
KMNEADNKWSDFYKEQSKIAQGFPLQEIKDPIIKLQLQILQQNGSSVLTAEKRKRLSTIL
TTMSTIYSTGKVCNPNNPQQCFTLSGLEDIMEKSKDYHERLWVWEGWRSEVGKQLRPLYE
EYVELKNEMARGNNYKDYGDYWRGDYETEGEKGYNYSRNYLMEDVDRIFLEIKPLYEQLH
AYVRAKLMKAYPSHISPTGCLPAHLLGDMWGRFWTNLYNLTVPLEKEPNIDVTDTMKKQS
WDAEKIFKEAEKFYSSVGLPNMTPGFWRDSMLTEPSDGRQVVCHPTAWDLGKNDFRIKMC
TKVTMDDFLTAHHEMGHIQYDMAYANQSYLLRNGANEGFHEAVGEVMSLSVATPKHLKGM
GLLPSDFSENNETEINFLLKQALTIVGTLPFTYMLEKWRWMVFEGKIPKEQWMEKWWEMK
REIVGVVEPLPHDETYCDPASLFHVANDYSFIRYFTRTILEFQFQEALCRTAKHQGPLHK
CDISNSTEAGKKLNDMLKLGKSTPWTYALEKIAETKEMDAKPLLNYFNPLFRWLKEQNGN
SVGWSVDSSPYSNQSIKVRISLKSALGEKAYEWNENEMYLFQSSVAYAMRVYFLKAKNES
IPFRAEDVRVSDEKKRVSFKFFVTSPTNMSDIIPRSEVEDAIRMSRSRINDAFRLDDNTL
EFLGVQPTLGPPYQPPVTIWLIVFGVVMGVVVIGIGVLIFTGIRDRKKRNQAENEENPYS
SVNLSKGENNPGFQSGDDVQTSF
Sequence of entity 2 (B, D), FASTA
>9MV0_2 Spike glycoprotein (chains B, D)
MIRSVLVLMCSLTFIGNLTRGQSVDMGHNGTGSCLDSQVQPDYFESVHTTWPMPIDTSKA
EGVIYPNGKSYSNITLTYTGLYPKANDLGKQYLFSDGHSAPGRLNNLFVSNYSSQVESFD
DGFVVRIGAAANKTGTTVISQSTFKPIKKIYPAFLLGHSVGNYTPSNRTGRYLNHTLVIL
PDGCGTILHAFYCVLHPRTQQNCAGETNFKSLSLWDTPASDCVSGSYNQEATLGAFKVYF
DLINCTFRYNYTITEDENAEWFGITQDTQGVHLYSSRKENVFRNNMFHFATLPVYQKILY
YTVIPRSIRSPFNDRKAWAAFYIYKLHPLTYLLNFDVEGYITKAVDCGYDDLAQLQCSYE
SFEVETGVYSVSSFEASPRGEFIEQATTQECDFTPMLTGTPPPIYNFKRLVFTNCNYNLT
KLLSLFQVSEFSCHQVSPSSLATGCYSSLTVDYFAYSTDMSSYLQPGSAGAIVQFNYKQD
FSNPTCRVLATVPQNLTTITKPSNYAYLTECYKTSAYGKNYLYNAPGAYTPCLSLASRGF
STKYQSHSDGELTTTGYIYPVTGNLQMAFIISVQYGTDTNSVCPMQALRNDTSIEDKLDV
CVEYSLHGITGRGVFHNCTSVGLRNQRFVYDTFDNLVGYHSDNGNYYCVRPCVSVPVSVI
YDKASNSHATLFGSVACSHVTTMMSQFSRMTKTNLLARTTPGPLQTTVGCAMGFINSSMV
VDECQLPLGQSLCAIPPTTSSRVRRATSGASDVFQIATLNFTSPLTLAPINSTGFVVAVP
TNFTFGVTQEFIETTIQKITVDCKQYVCNGFKKCEDLLKEYGQFCSKINQALHGANLRQD
ESIANLFSSIKTQNTQPLQAGLNGDFNLTMLQIPQVTTGERKYRSTIEDLLFNKVTIADP
GYMQGYDECMQQGPQSARDLICAQYVAGYKVLPPLYDPYMEAAYTSSLLGSIAGASWTAG
LSSFAAIPFAQSIFYRLNGVGITQQVLSENQKIIANKFNQALGAMQTGFTTTNLAFNKVQ
DAVNANAMALSKLAAELSNTFGAISSSISDILARLDTVEQEAQIDRLINGRLTSLNAFVA
QQLVRTEAAARSAQLAQDKVNECVKSQSKRNGFCGTGTHIVSFAINAPNGLYFFHVGYQP
TSHVNATAAYGLCNTENPQKCIAPIDGYFVLNQTTSTVADSDQQWYYTGSSFFHPEPITE
ANSKYVSMDVKFENLTNRLPPPLLSNSTDLDFKEELEEFFKNVSSQGPNFQEISKINTTL
LNLNTELMVLSEVVKQLNESYIDLKELGNYTFYQKWPWYIWLGFIAGLVALALCVFFILC
CTGCGTSCLGKLKCNRCCDSYDEYEVEKIHVH

Ligands and cofactors

IDNameFormulaCopies
NAG2-acetamido-2-deoxy-beta-D-glucopyranoseC8 H15 N O68

Primary citation

HKU5 bat merbecoviruses engage bat and mink ACE2 as entry receptors. Madel Alfajaro, M., Keeler, E.L., Li, N. et al. Nat Commun (2025) 16:6822-6822. DOI 10.1038/s41467-025-61583-7 · PubMed

Other PDB entries of the same protein (UniProt C7ECT9 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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