Cryo-EM structure of human ATG2A-WIPI4 complex. Determined by electron microscopy at 3.23 Å resolution. Released 7 Aug 2024.
Explore 8KBX in 3D Show helices and sheets RCSB PDB PDBe
8KBX contains 25 α-helices and 99 β-strands across 2 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 | 3-5 | 3 | |
| α-helix | 6-8 | 3 | |
| β-strand | 9-14 | 6 | 1 |
| β-strand | 20-25 | 6 | 1 |
| β-strand | 28-33 | 6 | 1 |
| β-strand | 38-43 | 6 | 1 |
| α-helix | 45-48 | 4 | |
| β-strand | 49-56 | 8 | 2 |
| β-strand | 62-72 | 11 | 2 |
| β-strand | 78-83 | 6 | 2 |
| α-helix | 91-94 | 4 | |
| β-strand | 95-100 | 6 | 2 |
| β-strand | 105-111 | 7 | 3 |
| β-strand | 114-119 | 6 | 3 |
| β-strand | 122-127 | 6 | 3 |
| β-strand | 134-139 | 6 | 3 |
| β-strand | 149-150 | 2 | 4 |
| β-strand | 158-162 | 5 | 4 |
| β-strand | 168-173 | 6 | 4 |
| α-helix | 178 | 1 | |
| β-strand | 186-189 | 4 | 4 |
| β-strand | 195-200 | 6 | 5 |
| β-strand | 206-211 | 6 | 5 |
| β-strand | 216-221 | 6 | 5 |
| β-strand | 227-232 | 6 | 5 |
| β-strand | 240-245 | 6 | 6 |
| β-strand | 251-256 | 6 | 6 |
| β-strand | 260-265 | 6 | 6 |
| α-helix | 269-271 | 3 | |
| β-strand | 273-274 | 2 | 5 |
| α-helix | 276-278 | 3 | |
| α-helix | 288-291 | 4 | |
| α-helix | 293 | 1 | |
| β-strand | 294-295 | 2 | 5 |
| α-helix | 296 | 1 | |
| β-strand | 298-301 | 4 | 6 |
| β-strand | 308-312 | 5 | 7 |
| β-strand | 317 | 1 | 8 |
| β-strand | 320 | 1 | 8 |
| β-strand | 321-327 | 7 | 7 |
| β-strand | 331-337 | 7 | 7 |
| β-strand | 343-350 | 8 | 7 |
| α-helix | 351-353 | 3 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 278-279 | 2 | 9 |
| α-helix | 294-303 | 10 | |
| β-strand | 425 | 1 | 10 |
| β-strand | 428-429 | 2 | 9 |
| β-strand | 436 | 1 | 11 |
| α-helix | 452-462 | 11 | |
| β-strand | 487 | 1 | 12 |
| β-strand | 490 | 1 | 11 |
| β-strand | 498-499 | 2 | 13 |
| β-strand | 502 | 1 | 10 |
| β-strand | 513-514 | 2 | 13 |
| β-strand | 522 | 1 | 12 |
| β-strand | 541 | 1 | 14 |
| β-strand | 559 | 1 | 13 |
| β-strand | 594 | 1 | 14 |
| α-helix | 601-608 | 8 | |
| β-strand | 632-634 | 3 | 15 |
| β-strand | 643 | 1 | 14 |
| β-strand | 679-682 | 4 | 15 |
| β-strand | 692-695 | 4 | 15 |
| β-strand | 738-740 | 3 | 15 |
| α-helix | 797-806 | 10 | |
| β-strand | 814 | 1 | 16 |
| β-strand | 817 | 1 | 17 |
| α-helix | 829-838 | 10 | |
| β-strand | 926 | 1 | 18 |
| β-strand | 929 | 1 | 16 |
| β-strand | 932 | 1 | 17 |
| β-strand | 935 | 1 | 19 |
| β-strand | 962 | 1 | 19 |
| β-strand | 965 | 1 | 17 |
| β-strand | 966-967 | 2 | 20 |
| β-strand | 968 | 1 | 16 |
| β-strand | 971 | 1 | 18 |
| α-helix | 973-975 | 3 | |
| β-strand | 979-981 | 3 | 21 |
| β-strand | 984-985 | 2 | 20 |
| β-strand | 986 | 1 | 22 |
| α-helix | 1043-1044 | 2 | |
| β-strand | 1045 | 1 | 22 |
| β-strand | 1051-1053 | 3 | 21 |
| β-strand | 1060 | 1 | 23 |
| β-strand | 1064 | 1 | 21 |
| β-strand | 1065 | 1 | 24 |
| β-strand | 1068 | 1 | 25 |
| α-helix | 1083-1091 | 9 | |
| α-helix | 1106 | 1 | |
| β-strand | 1107 | 1 | 23 |
| α-helix | 1108 | 1 | |
| β-strand | 1112 | 1 | 24 |
| β-strand | 1115 | 1 | 25 |
| β-strand | 1116-1117 | 2 | 26 |
| β-strand | 1121 | 1 | 27 |
| β-strand | 1133 | 1 | 28 |
| β-strand | 1134 | 1 | 27 |
| β-strand | 1138-1139 | 2 | 26 |
| β-strand | 1141-1142 | 2 | 29 |
| β-strand | 1151-1157 | 7 | 29 |
| β-strand | 1161 | 1 | 30 |
| β-strand | 1164 | 1 | 28 |
| β-strand | 1182 | 1 | 28 |
| β-strand | 1184-1185 | 2 | 31 |
| β-strand | 1186 | 1 | 30 |
| β-strand | 1190-1196 | 7 | 29 |
| β-strand | 1219-1220 | 2 | 31 |
| α-helix | 1224-1236 | 13 | |
| β-strand | 1418 | 1 | 32 |
| β-strand | 1422 | 1 | 33 |
| β-strand | 1425-1427 | 3 | 34 |
| β-strand | 1484-1486 | 3 | 34 |
| β-strand | 1487-1489 | 3 | 33 |
| β-strand | 1493 | 1 | 32 |
| β-strand | 1523-1525 | 3 | 33 |
| β-strand | 1528 | 1 | 35 |
| β-strand | 1540 | 1 | 35 |
| β-strand | 1558 | 1 | 33 |
| α-helix | 1596-1607 | 12 | |
| β-strand | 1676 | 1 | 36 |
| α-helix | 1692-1699 | 8 | |
| β-strand | 1706 | 1 | 36 |
| α-helix | 1723-1727 | 5 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| WD repeat domain phosphoinositide-interacting protein 4 | A | protein | 360 | Homo sapiens | Q9Y484 (AlphaFold model) |
| Autophagy-related protein 2 homolog A | B | protein | 1938 | Homo sapiens | Q2TAZ0 (AlphaFold model) |
>8KBX_1 WD repeat domain phosphoinositide-interacting protein 4 (chains A) MTQQPLRGVTSLRFNQDQSCFCCAMETGVRIYNVEPLMEKGHLDHEQVGSMGLVEMLHRS NLLALVGGGSSPKFSEISVLIWDDAREGKDSKEKLVLEFTFTKPVLSVRMRHDKIVIVLK NRIYVYSFPDNPRKLFEFDTRDNPKGLCDLCPSLEKQLLVFPGHKCGSLQLVDLASTKPG TSSAPFTINAHQSDIACVSLNQPGTVVASASQKGTLIRLFDTQSKEKLVELRRGTDPATL YCINFSHDSSFLCASSDKGTVHIFALKDTRLNRRSALARVGKVGPMIGQYVDSQWSLASF TVPAESACICAFGRNTSKNVNSVIAICVDGTFHKYVFTPDGNCNREAFDVYLDICDDDDF
>8KBX_2 Autophagy-related protein 2 homolog A (chains B) MSRWLWPWSNCVKERVCRYLLHHYLGHFFQEHLSLDQLSLDLYKGSVALRDIHLEIWSVN EVLESMESPLELVEGFVGSIEVAVPWAALLTDHCTVRVSGLQLTLQPRRGPAPGAADSQS WASCMTTSLQLAQECLRDGLPEPSEPPQPLEGLEMFAQTIETVLRRIKVTFLDTVVRVEH SPGDGERGVAVEVRVQRLEYCDEAVRDPSQAPPVDVHQPPAFLHKLLQLAGVRLHYEELP AQEEPPEPPLQIGSCSGYMELMVKLKQNEAFPGPKLEVAGQLGSLHLLLTPRQLQQLQEL LSAVSLTDHEGLADKLNKSRPLGAEDLWLIEQDLNQQLQAGAVAEPLSPDPLTNPLLNLD NTDLFFSMAGLTSSVASALSELSLSDVDLASSVRSDMASRRLSAQAHPAGKMAPNPLLDT MRPDSLLKMTLGGVTLTLLQTSAPSSGPPDLATHFFTEFDATKDGPFGSRDFHHLRPRFQ RACPCSHVRLTGTAVQLSWELRTGSRGRRTTSMEVHFGQLEVLECLWPRGTSEPEYTEIL TFPGTLGSQASARPCAHLRHTQILRRVPKSRPRRSVACHCHSELALDLANFQADVELGAL DRLAALLRLATVPAEPPAGLLTEPLPAMEQQTVFRLSAPRATLRLRFPIADLRPEPDPWA GQAVRAEQLRLELSEPQFRSELSSGPGPPVPTHLELTCSDLHGIYEDGGKPPVPCLRVSK ALDPKSTGRKYFLPQVVVTVNPQSSSTQWEVAPEKGEELELSVESPCELREPEPSPFSSK RTMYETEEMVIPGDPEEMRTFQSRTLALSRCSLEVILPSVHIFLPSKEVYESIYNRINND LLMWEPADLLPTPDPAAQPSGFPGPSGFWHDSFKMCKSAFKLANCFDLTPDSDSDDEDAH FFSVGASGGPQAAAPEAPSLHLQSTFSTLVTVLKGRITALCETKDEGGKRLEAVHGELVL DMEHGTLFSVSQYCGQPGLGYFCLEAEKATLYHRAAVDDYPLPSHLDLPSFAPPAQLAPT IYPSEEGVTERGASGRKGQGRGPHMLSTAVRIHLDPHKNVKEFLVTLRLHKATLRHYMAL PEQSWHSQLLEFLDVLDDPVLGYLPPTVITILHTHLFSCSVDYRPLYLPVRVLITAETFT LSSNIIMDTSTFLLRFILDDSALYLSDKCEVETLDLRRDYVCVLDVDLLELVIKTWKGST EGKLSQPLFELRCSNNVVHVHSCADSCALLVNLLQYVMSTGDLHPPPRPPSPTEIAGQKL SESPASLPSCPPVETALINQRDLADALLDTERSLRELAQPSGGHLPQASPISVYLFPGER SGAPPPSPPVGGPAGSLGSCSEEKEDEREEEGDGDTLDSDEFCILDAPGLGIPPRDGEPV VTQLHPGPIVVRDGYFSRPIGSTDLLRAPAHFPVPSTRVVLREVSLVWHLYGGRDFGPHP GHRARTGLSGPRSSPSRCSGPNRPQNSWRTQGGSGRQHHVLMEIQLSKVSFQHEVYPAEP ATGPAAPSQELEERPLSRQVFIVQELEVRDRLASSQINKFLYLHTSERMPRRAHSNMLTI KALHVAPTTNLGGPECCLRVSLMPLRLNVDQDALFFLKDFFTSLVAGINPVVPGETSAEA RPETRAQPSSPLEGQAEGVETTGSQEAPGGGHSPSPPDQQPIYFREFRFTSEVPIWLDYH GKHVTMDQVGTFAGLLIGLAQLNCSELKLKRLCCRHGLLGVDKVLGYALNEWLQDIRKNQ LPGLLGGVGPMHSVVQLFQGFRDLLWLPIEQYRKDGRLMRGLQRGAASFGSSTASAALEL SNRLVQAIQATAETVYDILSPAAPVSRSLQDKRSARRLRRGQQPADLREGVAKAYDTVRE GILDTAQTICDVASRGHEQKGLTGAVGGVIRQLPPTVVKPLILATEATSSLLGGMRNQIV PDAHKDHALKWRSDSAQD
Structural basis for lipid transfer by the ATG2A-ATG9A complex. Wang, Y., Dahmane, S., Ti, R. et al. Nat Struct Mol Biol (2025) 32:35-47. DOI 10.1038/s41594-024-01376-6 · PubMed
Other PDB entries of the same protein (UniProt Q9Y484 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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