Structure of the human Commander complex coiled coils, DENND10 and partial Retriever subcomplex. Determined by electron microscopy at 6.5 Å resolution. Released 20 Mar 2024.
Explore 8P0V in 3D Show helices and sheets RCSB PDB PDBe
8P0V contains 76 α-helices and 34 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.
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 313-375 | 63 | |
| α-helix | 380-423 | 44 | |
| α-helix | 447-487 | 41 | |
| α-helix | 491-550 | 60 | |
| α-helix | 553-630 | 78 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 2-15 | 14 | |
| α-helix | 26-28 | 3 | |
| α-helix | 31-45 | 15 | |
| α-helix | 47-50 | 4 | |
| α-helix | 57-58 | 2 | |
| α-helix | 61-76 | 16 | |
| α-helix | 86-89 | 4 | |
| α-helix | 94-107 | 14 | |
| α-helix | 322 | 1 | |
| α-helix | 323-327 | 5 | |
| α-helix | 328-391 | 64 | |
| α-helix | 396-483 | 88 | |
| α-helix | 487 | 1 | |
| α-helix | 489 | 1 | |
| α-helix | 490-547 | 58 | |
| α-helix | 551-596 | 46 | |
| α-helix | 599-626 | 28 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 2-11 | 10 | |
| β-strand | 14-20 | 7 | 1 |
| β-strand | 26-28 | 3 | 1 |
| β-strand | 33 | 1 | 1 |
| α-helix | 37-46 | 10 | |
| α-helix | 48-50 | 3 | |
| β-strand | 59-64 | 6 | 1 |
| β-strand | 67-73 | 7 | 1 |
| β-strand | 87-93 | 7 | 1 |
| α-helix | 99-116 | 18 | |
| α-helix | 119-132 | 14 | |
| β-strand | 134-135 | 2 | 2 |
| β-strand | 143-144 | 2 | 2 |
| α-helix | 145-147 | 3 | |
| α-helix | 150-155 | 6 | |
| α-helix | 159-166 | 8 | |
| α-helix | 169-178 | 10 | |
| β-strand | 182-186 | 5 | 3 |
| α-helix | 190-202 | 13 | |
| α-helix | 210-212 | 3 | |
| β-strand | 214 | 1 | 3 |
| α-helix | 221-229 | 9 | |
| β-strand | 233-237 | 5 | 3 |
| α-helix | 240-244 | 5 | |
| β-strand | 251-254 | 4 | 3 |
| β-strand | 259-260 | 2 | 3 |
| α-helix | 266-269 | 4 | |
| α-helix | 274-288 | 15 | |
| α-helix | 294-315 | 22 | |
| β-strand | 316-318 | 3 | 4 |
| α-helix | 319 | 1 | |
| β-strand | 325-327 | 3 | 4 |
| α-helix | 329-334 | 6 | |
| α-helix | 339-351 | 13 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 2-6 | 5 | 5 |
| α-helix | 11-14 | 4 | |
| α-helix | 20-25 | 6 | |
| β-strand | 33-36 | 4 | 5 |
| α-helix | 43-52 | 10 | |
| β-strand | 55-58 | 4 | 5 |
| β-strand | 72-77 | 6 | 6 |
| β-strand | 80-85 | 6 | 6 |
| α-helix | 87-89 | 3 | |
| α-helix | 96-106 | 11 | |
| β-strand | 110-112 | 3 | 6 |
| β-strand | 120-124 | 5 | 6 |
| β-strand | 127-131 | 5 | 6 |
| β-strand | 149-156 | 8 | 5 |
| β-strand | 159-168 | 10 | 5 |
| β-strand | 171-173 | 3 | 5 |
| β-strand | 175-176 | 2 | 7 |
| β-strand | 178-180 | 3 | 5 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 4-6 | 3 | |
| β-strand | 8 | 1 | 8 |
| α-helix | 13-20 | 8 | |
| β-strand | 21 | 1 | 6 |
| α-helix | 24 | 1 | |
| β-strand | 25-26 | 2 | 7 |
| α-helix | 27-28 | 2 | |
| α-helix | 461-474 | 14 | |
| α-helix | 479-495 | 17 | |
| α-helix | 499-516 | 18 | |
| α-helix | 519-533 | 15 | |
| α-helix | 538-541 | 4 | |
| α-helix | 543-556 | 14 | |
| α-helix | 560-565 | 6 | |
| α-helix | 569-575 | 7 | |
| α-helix | 579-596 | 18 | |
| α-helix | 604-620 | 17 | |
| α-helix | 627-643 | 17 | |
| α-helix | 650-663 | 14 | |
| α-helix | 668-689 | 22 | |
| α-helix | 695-714 | 20 | |
| α-helix | 718-734 | 17 | |
| α-helix | 738-754 | 17 | |
| β-strand | 759-761 | 3 | 9 |
| β-strand | 764-766 | 3 | 9 |
| α-helix | 768-784 | 17 | |
| α-helix | 787-789 | 3 | |
| α-helix | 796-807 | 12 | |
| α-helix | 815-832 | 18 | |
| α-helix | 846-850 | 5 | |
| α-helix | 854-880 | 27 | |
| α-helix | 884-901 | 18 | |
| β-strand | 902 | 1 | 8 |
| α-helix | 907-923 | 17 | |
| α-helix | 928-942 | 15 | |
| α-helix | 948-956 | 9 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Coiled-coil domain-containing protein 93 | K | protein | 631 | Homo sapiens | Q567U6 (AlphaFold model) |
| Coiled-coil domain-containing protein 22 | L | protein | 627 | Homo sapiens | O60826 (AlphaFold model) |
| DENN domain-containing protein 10 | M | protein | 357 | Homo sapiens | Q8TCE6 (AlphaFold model) |
| Vacuolar protein sorting-associated protein 29 | N | protein | 182 | Homo sapiens | Q9UBQ0 (AlphaFold model) |
| VPS35 endosomal protein-sorting factor-like | O | protein | 963 | Homo sapiens | Q7Z3J2 |
>8P0V_1 Coiled-coil domain-containing protein 93 (chains K) MGLPRGPEGQGLPEVETREDEEQNVKLTEILELLVAAGYFRARIKGLSPFDKVVGGMTWC ITTCNFDVDVDLLFQENSTIGQKIALSEKIVSVLPRMKCPHQLEPHQIQGMDFIHIFPVV QWLVKRAIETKEEMGDYIRSYSVSQFQKTYSLPEDDDFIKRKEKAIKTVVDLSEVYKPRR KYKRHQGAEELLDEESRIHATLLEYGRRYGFSRQSKMEKAEDKKTALPAGLSATEKADAH EEDELRAAEEQRIQSLMTKMTAMANEESRLTASSVGQIVGLCSAEIKQIVSEYAEKQSEL SAEESPEKLGTSQLHRRKVISLNKQIAQKTKHLEELRASHTSLQARYNEAKKTLTELKTY SEKLDKEQAALEKIESKADPSILQNLRALVAMNENLKSQEQEFKAHCREEMTRLQQEIEN LKAERAPRGDEKTLSSGEPPGTLTSAMTHDEDLDRRYNMEKEKLYKIRLLQARRNREIAI LHRKIDEVPSRAELIQYQKRFIELYRQISAVHKETKQFFTLYNTLDDKKVYLEKEISLLN SIHENFSQAMASPAARDQFLRQMEQIVEGIKQSRMKMEKKKQENKMRRDQLNDQYLELLE KQRLYFKTVKEFKEEGRKNEMLLSKVKAKAS
>8P0V_2 Coiled-coil domain-containing protein 22 (chains L) MEEADRILIHSLRQAGTAVPPDVQTLRAFTTELVVEAVVRCLRVINPAVGSGLSPLLPLA MSARFRLAMSLAQACMDLGYPLELGYQNFLYPSEPDLRDLLLFLAERLPTDASEDADQPA GDSAILLRAIGSQIRDQLALPWVPPHLRTPKLQHLQGSALQKPFHASRLVVPELSSRGEP REFQASPLLLPVPTQVPQPVGRVASLLEHHALQLCQQTGRDRPGDEDWVHRTSRLPPQED TRAQRQRLQKQLTEHLRQSWGLLGAPIQARDLGELLQAWGAGAKTGAPKGSRFTHSEKFT FHLEPQAQATQVSDVPATSRRPEQVTWAAQEQELESLREQLEGVNRSIEEVEADMKTLGV SFVQAESECRHSKLSTAEREQALRLKSRAVELLPDGTANLAKLQLVVENSAQRVIHLAGQ WEKHRVPLLAEYRHLRKLQDCRELESSRRLAEIQELHQSVRAAAEEARRKEEVYKQLMSE LETLPRDVSRLAYTQRILEIVGNIRKQKEEITKILSDTKELQKEINSLSGKLDRTFAVTD ELVFKDAKKDDAVRKAYKYLAALHENCSQLIQTIEDTGTIMREVRDLEEQIETELGKKTL SNLEKIREDYRALRQENAGLLGRVREA
>8P0V_3 DENN domain-containing protein 10 (chains M) MAAAEVADTQLMLGVGLIEKDTNGEVLWVWCYPSTTATLRNLLLRKCCLTDENKLLHPFV FGQYRRTWFYITTIEVPDSSILKKVTHFSIVLTAKDFNPEKYAAFTRILCRMYLKHGSPV KMMESYIAVLTKGICQSEENGSFLSKDFDARKAYLAGSIKDIVSQFGMETVILHTALMLK KRIVVYHPKIEAVQEFTRTLPALVWHRQDWTILHSYVHLNADELEALQMCTGYVAGFVDL EVSNRPDLYDVFVNLAESEITIAPLAKEAMAMGKLHKEMGQLIVQSAEDPEKSESHVIQD IALKTREIFTNLAPFSEVSADGEKRVLNLEALKQKRFPPATENFLYHLAAAEQMLKI
>8P0V_4 Vacuolar protein sorting-associated protein 29 (chains N) MLVLVLGDLHIPHRCNSLPAKFKKLLVPGKIQHILCTGNLCTKESYDYLKTLAGDVHIVR GDFDENLNYPEQKVVTVGQFKIGLIHGHQVIPWGDMASLALLQRQFDVDILISGHTHKFE AFEHENKFYINPGSATGAYNALETNIIPSFVLMDIQASTVVTYVYQLIGDDVKVERIEYK KP
>8P0V_5 VPS35 endosomal protein-sorting factor-like (chains O) MAVFPWHSRNRNYKAEFASCRLEAVPLEFGDYHPLKPITVTESKTKKVNRKGSTSSTSSS SSSSVVDPLSSVLDGTDPLSMFAATADPAALAAAMDSSRRKRDRDDNSVVGSDFEPWTNK RGEILARYTTTEKLSINLFMGSEKGKAGTATLAMSEKVRTRLEELDDFEEGSQKELLNLT QQDYVNRIEELNQSLKDAWASDQKVKALKIVIQCSKLLSDTSVIQFYPSKFVLITDILDT FGKLVYERIFSMCVDSRSVLPDHFSPENANDTAKETCLNWFFKIASIRELIPRFYVEASI LKCNKFLSKTGISECLPRLTCMIRGIGDPLVSVYARAYLCRVGMEVAPHLKETLNKNFFD FLLTFKQIHGDTVQNQLVVQGVELPSYLPLYPPAMDWIFQCISYHAPEALLTEMMERCKK LGNNALLLNSVMSAFRAEFIATRSMDFIGMIKECDESGFPKHLLFRSLGLNLALADPPES DRLQILNEAWKVITKLKNPQDYINCAEVWVEYTCKHFTKREVNTVLADVIKHMTPDRAFE DSYPQLQLIIKKVIAHFHDFSVLFSVEKFLPFLDMFQKESVRVEVCKCIMDAFIKHQQEP TKDPVILNALLHVCKTMHDSVNALTLEDEKRMLSYLINGFIKMVSFGRDFEQQLSFYVES RSMFCNLEPVLVQLIHSVNRLAMETRKVMKGNHSRKTAAFVRACVAYCFITIPSLAGIFT RLNLYLHSGQVALANQCLSQADAFFKAAISLVPEVPKMINIDGKMRPSESFLLEFLCNFF STLLIVPDHPEHGVLFLVRELLNVIQDYTWEDNSDEKIRIYTCVLHLLSAMSQETYLYHI DKVDSNDSLYGGDSKFLAENNKLCETVMAQILEHLKTLAKDEALKRQSSLGLSFFNSILA HGDLRNNKLNQLSVNLWHLAQRHGCADTRTMVKTLEYIKKQSKQPDMTHLTELALRLPLQ TRT
Structure and interactions of the endogenous human Commander complex. Laulumaa, S., Kumpula, E.P., Huiskonen, J.T. et al. Nat Struct Mol Biol (2024) 31:925-938. DOI 10.1038/s41594-024-01246-1 · PubMed
Other PDB entries of the same protein (UniProt Q567U6 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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