8H3Q: CAND1-Cul3-Rbx1 complex

Cryo-EM Structure of the CAND1-Cul3-Rbx1 complex. Determined by electron microscopy at 3.76 Å resolution. Released 11 Oct 2023.

Method
Electron microscopy
Resolution
3.76 Å
Organism
Homo sapiens
Chains
3
Atoms
15,511
Mol. weight
238.08 kDa
Ligands
ZN
Released
11 Oct 2023

Explore 8H3Q in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8H3Q contains 96 α-helices and 16 β-strands across 3 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: 62 helices, 4 β-strands

ElementResiduesLengthSheet
α-helix5-1713
α-helix20-3718
α-helix43-5816
α-helix62-7817
α-helix81-9616
α-helix100-11617
α-helix125-14117
α-helix148-16417
α-helix173-1808
α-helix181-1855
α-helix189-20315
α-helix208-22114
α-helix229-24113
α-helix246-26116
α-helix267-27913
α-helix286-29914
α-helix347-36317
α-helix365-3673
α-helix368-3758
α-helix376-3816
α-helix3821
α-helix390-40213
α-helix424-44320
α-helix448-46417
α-helix473-48311
α-helix493-50715
α-helix510-5123
α-helix514-5185
α-helix521-5288
α-helix533-55018
α-helix562-57615
α-helix583-60018
α-helix608-61912
α-helix624-63512
α-helix645-65915
α-helix664-68017
α-helix687-70014
β-strand70211
β-strand70511
α-helix706-72015
α-helix724-74219
α-helix749-76416
β-strand76712
β-strand77012
α-helix773-78614
α-helix794-80916
α-helix815-82511
α-helix832-84817
α-helix857-8659
α-helix870-88415
α-helix888-89912
α-helix904-91815
α-helix926-93813
α-helix945-96016
α-helix963-97614
α-helix979-99113
α-helix1001-101414
α-helix1020-103617
α-helix1044-105613
α-helix1079-109517
α-helix1102-111312
α-helix1117-113317
α-helix1136-11394
α-helix1142-115211
α-helix1163-118422
α-helix1204-12096
Chain C: 33 helices, 7 β-strands
ElementResiduesLengthSheet
α-helix27-4519
α-helix55-6511
α-helix70-8415
α-helix85-895
α-helix90-956
α-helix101-13333
α-helix139-1479
α-helix148-1525
α-helix157-17418
α-helix180-19415
α-helix203-22422
α-helix231-24919
α-helix258-2647
α-helix265-2695
α-helix270-2767
α-helix284-2907
α-helix294-30310
α-helix310-32819
α-helix338-35821
α-helix364-37815
α-helix384-39714
α-helix405-42016
α-helix425-44016
α-helix450-45910
α-helix468-49427
β-strand502-50323
β-strand506-50944
α-helix514-5152
α-helix526-54015
β-strand547-55044
β-strand556-56053
β-strand591-59443
α-helix598-60710
α-helix613-6186
α-helix626-6327
β-strand645-64625
β-strand659-66025
α-helix685-71228
α-helix722-7298
α-helix740-7445
Chain E: 1 helix, 5 β-strands
ElementResiduesLengthSheet
β-strand23-2863
β-strand30-3454
β-strand70-7236
β-strand78-8036
α-helix81-877
β-strand105-10626

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Cullin-associated NEDD8-dissociated protein 1Aprotein1230Homo sapiensQ86VP6 (AlphaFold model)
Cullin-3Cprotein768Homo sapiensQ13618 (AlphaFold model)
E3 ubiquitin-protein ligase RBX1Eprotein108Homo sapiensP62877 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>8H3Q_1 Cullin-associated NEDD8-dissociated protein 1 (chains A)
MASASYHISNLLEKMTSSDKDFRFMATNDLMTELQKDSIKLDDDSERKVVKMILKLLEDK
NGEVQNLAVKCLGPLVSKVKEYQVETIVDTLCTNMLSDKEQLRDISSIGLKTVIGELPPA
SSGSALAANVCKKITGRLTSAIAKQEDVSVQLEALDIMADMLSRQGGLLVNFHPSILTCL
LPQLTSPRLAVRKRTIIALGHLVMSCGNIVFVDLIEHLLSELSKNDSMSTTRTYIQCIAA
ISRQAGHRIGEYLEKIIPLVVKFCNVDDDELREYCIQAFESFVRRCPKEVYPHVSTIINI
CLKYLTYDPNYNYDDEDEDENAMDADGGDDDDQGSDDEYSDDDDMSWKVRRAAAKCLDAV
VSTRHEMLPEFYKTVSPALISRFKEREENVKADVFHAYLSLLKQTRPVQSWLCDPDAMEQ
GETPLTMLQSQVPNIVKALHKQMKEKSVKTRQCCFNMLTELVNVLPGALTQHIPVLVPGI
IFSLNDKSSSSNLKIDALSCLYVILCNHSPQVFHPHVQALVPPVVACVGDPFYKITSEAL
LVTQQLVKVIRPLDQPSSFDATPYIKDLFTCTIKRLKAADIDQEVKERAISCMGQIICNL
GDNLGSDLPNTLQIFLERLKNEITRLTTVKALTLIAGSPLKIDLRPVLGEGVPILASFLR
KNQRALKLGTLSALDILIKNYSDSLTAAMIDAVLDELPPLISESDMHVSQMAISFLTTLA
KVYPSSLSKISGSILNELIGLVRSPLLQGGALSAMLDFFQALVVTGTNNLGYMDLLRMLT
GPVYSQSTALTHKQSYYSIAKCVAALTRACPKEGPAVVGQFIQDVKNSRSTDSIRLLALL
SLGEVGHHIDLSGQLELKSVILEAFSSPSEEVKSAASYALGSISVGNLPEYLPFVLQEIT
SQPKRQYLLLHSLKEIISSASVVGLKPYVENIWALLLKHCECAEEGTRNVVAECLGKLTL
IDPETLLPRLKGYLISGSSYARSSVVTAVKFTISDHPQPIDPLLKNCIGDFLKTLEDPDL
NVRRVALVTFNSAAHNKPSLIRDLLDTVLPHLYNETKVRKELIREVEMGPFKHTVDDGLD
IRKAAFECMYTLLDSCLDRLDIFEFLNHVEDGLKDHYDIKMLTFLMLVRLSTLCPSAVLQ
RLDRLVEPLRATCTTKVKANSVKQEFEKQDELKRSAMRAVAALLTIPEAEKSPLMSEFQS
QISSNPELAAIFESIQKDSSSTNLESMDTS
Sequence of entity 2 (C), FASTA
>8H3Q_2 Cullin-3 (chains C)
MSNLSKGTGSRKDTKMRIRAFPMTMDEKYVNSIWDLLKNAIQEIQRKNNSGLSFEELYRN
AYTMVLHKHGEKLYTGLREVVTEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIR
DILMYMDRVYVQQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDR
GAIRNACQMLMILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEAR
INEEIERVMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMY
KLFSRVPNGLKTMCECMSSYLREQGKALVSEEGEGKNPVDYIQGLLDLKSRFDRFLLESF
NNDRLFKQTIAGDFEYFLNLNSRSPEYLSLFIDDKLKKGVKGLTEQEVETILDKAMVLFR
FMQEKDVFERYYKQHLARRLLTNKSVSDDSEKNMISKLKTECGCQFTSKLEGMFRDMSIS
NTTMDEFRQHLQATGVSLGGVDLTVRVLTTGYWPTQSATPKCNIPPAPRHAFEIFRRFYL
AKHSGRQLTLQHHMGSADLNATFYGPVKKEDGSEVGVGGAQVTGSNTRKHILQVSTFQMT
ILMLFNNREKYTFEEIQQETDIPERELVRALQSLACGKPTQRVLTKEPKSKEIENGHIFT
VNDQFTSKLHRVKIQTVAAKQGESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHN
VLVAEVTQQLKARFLPSPVVIKKRIEGLIEREYLARTPEDRKVYTYVA
Sequence of entity 3 (E), FASTA
>8H3Q_3 E3 ubiquitin-protein ligase RBX1 (chains E)
MAAAMDVDTPSGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQ
ASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQKYGH

Ligands and cofactors

IDNameFormulaCopies
ZNZinc ionZn3

Primary citation

Dynamic molecular architecture and substrate recruitment of cullin3-RING E3 ligase CRL3 KBTBD2. Hu, Y., Zhang, Z., Mao, Q. et al. Nat Struct Mol Biol (2024) 31:336-350. DOI 10.1038/s41594-023-01182-6 · PubMed

Other PDB entries of the same protein (UniProt Q86VP6 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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