6ZWO: Human mTOR complex 2, focused on one half

cryo-EM structure of human mTOR complex 2, focused on one half. Determined by electron microscopy at 3.0 Å resolution. Released 18 Nov 2020.

Method: Electron microscopy
Resolution: 3.0 Å
Organism: Homo sapiens
Chains: 4
Atoms: 24,994
Mol. weight: 578.53 kDa
Ligands: ACE, ZN, IHP, AGS
Released: 18 Nov 2020

Explore 6ZWO in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6ZWO contains 181 α-helices and 47 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 B: 97 helices, 14 β-strands

Element	Residues	Length	Sheet
α-helix	793-808	16
α-helix	817-828	12
α-helix	837-846	10
α-helix	856-860	5
α-helix	864-870	7
α-helix	878-891	14
α-helix	896-901	6
α-helix	930-935	6
α-helix	947-959	13
α-helix	968-982	15
α-helix	990-1003	14
α-helix	1006-1008	3
α-helix	1009-1022	14
α-helix	1028-1030	3
α-helix	1031-1038	8
α-helix	1049-1063	15
α-helix	1067-1069	3
α-helix	1072-1074	3
α-helix	1075-1083	9
α-helix	1091-1100	10
α-helix	1116-1122	7
α-helix	1129-1141	13
α-helix	1150-1152	3
α-helix	1153-1164	12
α-helix	1170-1181	12
α-helix	1186-1188	3
α-helix	1192-1201	10
α-helix	1207-1217	11
α-helix	1229-1237	9
α-helix	1266-1269	4
α-helix	1277-1293	17
α-helix	1298-1307	10
α-helix	1311-1316	6
α-helix	1318-1326	9
α-helix	1331-1347	17
α-helix	1351-1365	15
α-helix	1371-1373	3
α-helix	1377-1379	3
α-helix	1380-1388	9
α-helix	1393-1406	14
α-helix	1410-1422	13
α-helix	1426-1439	14
α-helix	1447-1452	6
α-helix	1456-1467	12
α-helix	1477-1487	11
α-helix	1490-1498	9
α-helix	1506-1523	18
α-helix	1526-1533	8
α-helix	1541-1553	13
α-helix	1559-1578	20
α-helix	1583-1597	15
α-helix	1599-1607	9
α-helix	1609-1611	3
α-helix	1612-1623	12
α-helix	1630-1640	11
α-helix	1651-1662	12
α-helix	1666-1677	12
α-helix	1688-1690	3
α-helix	1694-1707	14
α-helix	1712-1728	17
α-helix	1740-1762	23
α-helix	1769-1783	15
α-helix	1787-1808	22
α-helix	1876-1895	20
α-helix	1900-1913	14
α-helix	1917-1929	13
α-helix	1933-1938	6
α-helix	1939-1943	5
α-helix	1951-1967	17
α-helix	1973-1980	8
α-helix	1985-1998	14
α-helix	2004-2020	17
α-helix	2023-2041	19
α-helix	2044-2058	15
α-helix	2065-2074	10
α-helix	2077-2090	14
α-helix	2094-2112	19
β-strand	2120-2122	3	1
α-helix	2123-2126	4
β-strand	2139	1	2
α-helix	2140	1
α-helix	2149-2151	3
β-strand	2152	1	2
β-strand	2153-2156	4	3
β-strand	2159-2162	4	1
β-strand	2170-2171	2	1
β-strand	2173-2176	4	3
β-strand	2181-2183	3	3
β-strand	2184-2188	5	1
α-helix	2193-2210	18
α-helix	2213-2216	4
β-strand	2227-2231	5	1
β-strand	2234-2238	5	1
α-helix	2239-2240	2
β-strand	2243-2245	3	4
α-helix	2247-2256	10
α-helix	2263-2271	9
α-helix	2275-2277	3
α-helix	2280-2292	13
α-helix	2298-2305	8
α-helix	2310-2334	25
β-strand	2344-2347	4	4
β-strand	2353-2355	3	4
α-helix	2381-2384	4
α-helix	2395-2409	15
α-helix	2411-2422	12
α-helix	2430-2432	3
α-helix	2493-2507	15
α-helix	2521-2532	12
α-helix	2535-2538	4
α-helix	2543-2545	3

Chain D: 0 helices, 28 β-strands

Element	Residues	Length	Sheet
β-strand	14-19	6	5
β-strand	23-27	5	5
β-strand	34-39	6	5
β-strand	47-50	4	6
β-strand	56-60	5	6
β-strand	65-69	5	6
β-strand	79-81	3	6
β-strand	88-93	6	7
β-strand	99-104	6	7
β-strand	108-113	6	7
β-strand	124-126	3	7
β-strand	131-136	6	8
β-strand	142-147	6	8
β-strand	152-156	5	8
β-strand	162-165	4	8
β-strand	173-178	6	9
β-strand	185-189	5	9
β-strand	194-198	5	9
β-strand	211-216	6	9
β-strand	223-228	6	10
β-strand	234-239	6	10
β-strand	243-248	6	10
β-strand	254-259	6	10
β-strand	273-277	5	11
β-strand	284-289	6	11
β-strand	294-298	5	11
β-strand	304-308	5	11
β-strand	315-321	7	5

Chain F: 79 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	33-45	13
α-helix	46-48	3
α-helix	53-69	17
α-helix	81-88	8
α-helix	97-108	12
α-helix	114-122	9
α-helix	125-133	9
α-helix	142-156	15
α-helix	158-160	3
α-helix	163-174	12
α-helix	184-195	12
α-helix	199-204	6
α-helix	207-214	8
α-helix	221-234	14
α-helix	238-241	4
α-helix	250-254	5
α-helix	255-258	4
α-helix	274-291	18
α-helix	295-301	7
α-helix	310-314	5
α-helix	315-317	3
α-helix	324-334	11
α-helix	337-339	3
α-helix	346-352	7
α-helix	360-362	3
α-helix	364-367	4
α-helix	370-376	7
α-helix	378-379	2
α-helix	387-401	15
α-helix	404-413	10
α-helix	417-437	21
α-helix	440-443	4
α-helix	450-456	7
α-helix	463-485	23
α-helix	493-508	16
α-helix	526-534	9
α-helix	548-556	9
α-helix	568-581	14
α-helix	591	1
β-strand	592	1	12
α-helix	599-614	16
α-helix	620-638	19
α-helix	648-651	4
β-strand	654	1	12
α-helix	655-658	4
α-helix	659-667	9
α-helix	670-678	9
α-helix	682-688	7
α-helix	696-702	7
α-helix	712-722	11
α-helix	726-734	9
α-helix	737-740	4
α-helix	747-758	12
α-helix	764-777	14
α-helix	781-788	8
α-helix	799-805	7
α-helix	806-810	5
α-helix	812-820	9
α-helix	824-830	7
α-helix	831-835	5
α-helix	836-851	16
α-helix	877-880	4
α-helix	882-886	5
α-helix	891-897	7
α-helix	902-910	9
α-helix	918-933	16
α-helix	937-944	8
α-helix	949-958	10
α-helix	962-975	14
α-helix	979-987	9
β-strand	990-992	3	13
α-helix	1002-1004	3
β-strand	1428-1430	3	13
α-helix	1433-1435	3
α-helix	1480-1486	7
α-helix	1489-1492	4
α-helix	1523-1528	6
α-helix	1531-1537	7
α-helix	1610-1622	13
α-helix	1629-1642	14
α-helix	1650-1660	11
α-helix	1667-1676	10
α-helix	1683-1693	11

Chain H: 5 helices, 1 β-strand

Element	Residues	Length	Sheet
α-helix	7-20	14
α-helix	26-30	5
α-helix	85-100	16
β-strand	104-106	3	6
α-helix	117-123	7
α-helix	140-145	6

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Serine/threonine-protein kinase mTOR	B	protein	2549	Homo sapiens	P42345 (AlphaFold model)
Target of rapamycin complex subunit LST8	D	protein	326	Homo sapiens	Q9BVC4 (AlphaFold model)
Rapamycin-insensitive companion of mTOR	F	protein	1708	Homo sapiens	Q6R327 (AlphaFold model)
Target of rapamycin complex 2 subunit MAPKAP1	H	protein	521	Homo sapiens	Q9BPZ7 (AlphaFold model)

Sequence of entity 1 (B), FASTA

>6ZWO_1 Serine/threonine-protein kinase mTOR (chains B)
MLGTGPAAATTAATTSSNVSVLQQFASGLKSRNEETRAKAAKELQHYVTMELREMSQEES
TRFYDQLNHHIFELVSSSDANERKGGILAIASLIGVEGGNATRIGRFANYLRNLLPSNDP
VVMEMASKAIGRLAMAGDTFTAEYVEFEVKRALEWLGADRNEGRRHAAVLVLRELAISVP
TFFFQQVQPFFDNIFVAVWDPKQAIREGAVAALRACLILTTQREPKEMQKPQWYRHTFEE
AEKGFDETLAKEKGMNRDDRIHGALLILNELVRISSMEGERLREEMEEITQQQLVHDKYC
KDLMGFGTKPRHITPFTSFQAVQPQQSNALVGLLGYSSHQGLMGFGTSPSPAKSTLVESR
CCRDLMEEKFDQVCQWVLKCRNSKNSLIQMTILNLLPRLAAFRPSAFTDTQYLQDTMNHV
LSCVKKEKERTAAFQALGLLSVAVRSEFKVYLPRVLDIIRAALPPKDFAHKRQKAMQVDA
TVFTCISMLARAMGPGIQQDIKELLEPMLAVGLSPALTAVLYDLSRQIPQLKKDIQDGLL
KMLSLVLMHKPLRHPGMPKGLAHQLASPGLTTLPEASDVGSITLALRTLGSFEFEGHSLT
QFVRHCADHFLNSEHKEIRMEAARTCSRLLTPSIHLISGHAHVVSQTAVQVVADVLSKLL
VVGITDPDPDIRYCVLASLDERFDAHLAQAENLQALFVALNDQVFEIRELAICTVGRLSS
MNPAFVMPFLRKMLIQILTELEHSGIGRIKEQSARMLGHLVSNAPRLIRPYMEPILKALI
LKLKDPDPDPNPGVINNVLATIGELAQVSGLEMRKWVDELFIIIMDMLQDSSLLAKRQVA
LWTLGQLVASTGYVVEPYRKYPTLLEVLLNFLKTEQNQGTRREAIRVLGLLGALDPYKHK
VNIGMIDQSRDASAVSLSESKSSQDSSDYSTSEMLVNMGNLPLDEFYPAVSMVALMRIFR
DQSLSHHHTMVVQAITFIFKSLGLKCVQFLPQVMPTFLNVIRVCDGAIREFLFQQLGMLV
SFVKSHIRPYMDEIVTLMREFWVMNTSIQSTIILLIEQIVVALGGEFKLYLPQLIPHMLR
VFMHDNSPGRIVSIKLLAAIQLFGANLDDYLHLLLPPIVKLFDAPEAPLPSRKAALETVD
RLTESLDFTDYASRIIHPIVRTLDQSPELRSTAMDTLSSLVFQLGKKYQIFIPMVNKVLV
RHRINHQRYDVLICRIVKGYTLADEEEDPLIYQHRMLRSGQGDALASGPVETGPMKKLHV
STINLQKAWGAARRVSKDDWLEWLRRLSLELLKDSSSPSLRSCWALAQAYNPMARDLFNA
AFVSCWSELNEDQQDELIRSIELALTSQDIAEVTQTLLNLAEFMEHSDKGPLPLRDDNGI
VLLGERAAKCRAYAKALHYKELEFQKGPTPAILESLISINNKLQQPEAAAGVLEYAMKHF
GELEIQATWYEKLHEWEDALVAYDKKMDTNKDDPELMLGRMRCLEALGEWGQLHQQCCEK
WTLVNDETQAKMARMAAAAAWGLGQWDSMEEYTCMIPRDTHDGAFYRAVLALHQDLFSLA
QQCIDKARDLLDAELTAMAGESYSRAYGAMVSCHMLSELEEVIQYKLVPERREIIRQIWW
ERLQGCQRIVEDWQKILMVRSLVVSPHEDMRTWLKYASLCGKSGRLALAHKTLVLLLGVD
PSRQLDHPLPTVHPQVTYAYMKNMWKSARKIDAFQHMQHFVQTMQQQAQHAIATEDQQHK
QELHKLMARCFLKLGEWQLNLQGINESTIPKVLQYYSAATEHDRSWYKAWHAWAVMNFEA
VLHYKHQNQARDEKKKLRHASGANITNATTAATTAATATTTASTEGSNSESEAESTENSP
TPSPLQKKVTEDLSKTLLMYTVPAVQGFFRSISLSRGNNLQDTLRVLTLWFDYGHWPDVN
EALVEGVKAIQIDTWLQVIPQLIARIDTPRPLVGRLIHQLLTDIGRYHPQALIYPLTVAS
KSTTTARHNAANKILKNMCEHSNTLVQQAMMVSEELIRVAILWHEMWHEGLEEASRLYFG
ERNVKGMFEVLEPLHAMMERGPQTLKETSFNQAYGRDLMEAQEWCRKYMKSGNVKDLTQA
WDLYYHVFRRISKQLPQLTSLELQYVSPKLLMCRDLELAVPGTYDPNQPIIRIQSIAPSL
QVITSKQRPRKLTLMGSNGHEFVFLLKGHEDLRQDERVMQLFGLVNTLLANDPTSLRKNL
SIQRYAVIPLSTNSGLIGWVPHCDTLHALIRDYREKKKILLNIEHRIMLRMAPDYDHLTL
MQKVEVFEHAVNNTAGDDLAKLLWLKSPSSEVWFDRRTNYTRSLAVMSMVGYILGLGDRH
PSNLMLDRLSGKILHIDFGDCFEVAMTREKFPEKIPFRLTRMLTNAMEVTGLDGNYRITC
HTVMEVLREHKDSVMAVLEAFVYDPLLNWRLMDTNTKGNKRSRTRTDSYSAGQSVEILDG
VELGEPAHKKTGTTVPESIHSFIGDGLVKPEALNKKAIQIINRVRDKLTGRDFSHDDTLD
VPTQVELLIKQATSHENLCQCYIGWCPFW

Sequence of entity 2 (D), FASTA

>6ZWO_2 Target of rapamycin complex subunit LST8 (chains D)
MNTSPGTVGSDPVILATAGYDHTVRFWQAHSGICTRTVQHQDSQVNALEVTPDRSMIAAA
GYQHIRMYDLNSNNPNPIISYDGVNKNIASVGFHEDGRWMYTGGEDCTARIWDLRSRNLQ
CQRIFQVNAPINCVCLHPNQAELIVGDQSGAIHIWDLKTDHNEQLIPEPEVSITSAHIDP
DASYMAAVNSTGNCYVWNLTGGIGDEVTQLIPKTKIPAHTRYALQCRFSPDSTLLATCSA
DQTCKIWRTSNFSLMTELSIKSGNPGESSRGWMWGCAFSGDSQYIVTASSDNLARLWCVE
TGEIKREYGGHQKAVVCLAFNDSVLG

Sequence of entity 3 (F), FASTA

>6ZWO_3 Rapamycin-insensitive companion of mTOR (chains F)
MAAIGRGRSLKNLRVRGRNDSGEENVPLDLTREPSDNLREILQNVARLQGVSNMRKLGHL
NNFTKLLCDIGHSEEKLGFHYEDIIICLRLALLNEAKEVRAAGLRALRYLIQDSSILQKV
LKLKVDYLIARCIDIQQSNEVERTQALRLVRKMITVNASLFPSSVTNSLIAVGNDGLQER
DRMVRACIAIICELALQNPEVVALRGGLNTILKNVIDCQLSRINEALITTILHLLNHPKT
RQYVRADVELERILAPYTDFHYRHSPDTAEGQLKEDREARFLASKMGIIATFRSWAGIIN
LCKPGNSGIQSLIGVLCIPNMEIRRGLLEVLYDIFRLPLPVVTEEFIEALLSVDPGRFQD
SWRLSDGFVAAEAKTILPHRARSRPDLMDNYLALILSAFIRNGLLEGLVEVITNSDDHIS
VRATILLGELLHMANTILPHSHSHHLHCLPTLMNMAASFDIPKEKRLRASAALNCLKRFH
EMKKRGPKPYSLHLDHIIQKAIATHQKRDQYLRVQKDIFILKDTEEALLINLRDSQVLQH
KENLEWNWNLIGTILKWPNVNLRNYKDEQLHRFVRRLLYFYKPSSKLYANLDLDFAKAKQ
LTVVGCQFTEFLLESEEDGQGYLEDLVKDIVQWLNASSGMKPERSLQNNGLLTTLSQHYF
LFIGTLSCHPHGVKMLEKCSVFQCLLNLCSLKNQDHLLKLTVSSLDYSRDGLARVILSKI
LTAATDACRLYATKHLRVLLRANVEFFNNWGIELLVTQLHDKNKTISSEALDILDEACED
KANLHALIQMKPALSHLGDKGLLLLLRFLSIPKGFSYLNERGYVAKQLEKWHREYNSKYV
DLIEEQLNEALTTYRKPVDGDNYVRRSNQRLQRPHVYLPIHLYGQLVHHKTGCHLLEVQN
IITELCRNVRTPDLDKWEEIKKLKASLWALGNIGSSNWGLNLLQEENVIPDILKLAKQCE
VLSIRGTCVYVLGLIAKTKQGCDILKCHNWDAVRHSRKHLWPVVPDDVEQLCNELSSIPS
TLSLNSESTSSRHNSESESVPSSMFILEDDRFGSSSTSTFFLDINEDTEPTFYDRSGPIK
DKNSFPFFASSKLVKNRILNSLTLPNKKHRSSSDPKGGKLSSESKTSNRRIRTLTEPSVD
FNHSDDFTPISTVQKTLQLETSFMGNKHIEDTGSTPSIGENDLKFTKNFGTENHRENTSR
ERLVVESSTSSHMKIRSQSFNTDTTTSGISSMSSSPSRETVGVDATTMDTDCGSMSTVVS
TKTIKTSHYLTPQSNHLSLSKSNSVSLVPPGSSHTLPRRAQSLKAPSIATIKSLADCNFS
YTSSRDAFGYATLKRLQQQRMHPSLSHSEALASPAKDVLFTDTITMKANSFESRLTPSRF
MKALSYASLDKEDLLSPINQNTLQRSSSVRSMVSSATYGGSDDYIGLALPVDINDIFQVK
DIPYFQTKNIPPHDDRGARAFAHDAGGLPSGTGGLVKNSFHLLRQQMSLTEIMNSIHSDA
SLFLESTEDTGLQEHTDDNCLYCVCIEILGFQPSNQLSAICSHSDFQDIPYSDWCEQTIH
NPLEVVPSKFSGISGCSDGVSQEGSASSTKSTELLLGVKTIPDDTPMCRILLRKEVLRLV
INLSSSVSTKCHETGLLTIKEKYPQTFDDICLYSEVSHLLSHCTFRLPCRRFIQELFQDV
QFLQMHEEAEAVLATPPKQPIVDTSAES

Sequence of entity 4 (H), FASTA

>6ZWO_4 Target of rapamycin complex 2 subunit MAPKAP1 (chains H)
AFLDNPTIILAHIRQSHVTSDDTGMCEMVLIDHDVDLEKIHPPSMPGDSGSEIQGSNGET
QGYVYAQSVDITSSWDFGIRRRSNTAQRLERLRKERQNQIKCKNIQWKERNSKQSAQELK
SLFEKKSLKEKPPISGKQSILSVRLEQCPLQLNNPFNEYSKFDGKGHVGTTATKKIDVYL
PLHSSQDRLLPMTVVTMASARVQDLIGLICWQYTSEGREPKLNDNVSAYCLHIAEDDGEV
DTDFPPLDSNEPIHKFGFSTLALVEKYSSPGLTSKESLFVRINAAHGFSLIQVDNTKVTM
KEILLKAVKRRKGSQKVSGPQYRLEKQSEPNVAVDLDSTLESQSAWEFCLVRENSSRADG
VFEEDSQIDIATVQDMLSSHHYKSFKVSMIHRLRFTTDVQLGISGDKVEIDPVTNQKAST
KFWIKQKPISIDSDLLCACDLAEEKSPSHAIFKLTYLSNHDYKHLYFESDAATVNEIVLK
VNYILESRASTARADYFAQKQRKLNRRTSFSFQKEKKSGQQ

Ligands and cofactors

ID	Name	Formula	Copies
ACE	Acetyl group	C2 H4 O	1
ZN	Zinc ion	Zn	1
IHP	Inositol hexakisphosphate	C6 H18 O24 P6	1
AGS	Phosphothiophosphoric acid-adenylate ester	C10 H16 N5 O12 P3 S	2

Primary citation

The 3.2- angstrom resolution structure of human mTORC2. Scaiola, A., Mangia, F., Imseng, S. et al. Sci Adv (2020) 6. DOI 10.1126/sciadv.abc1251 · PubMed

Other PDB entries of the same protein (UniProt P42345 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4DRI 1.45 Å, Co-crystal structure of the PPIase domain of FKBP51, Rapamycin and the FRB fragment of…
9DBO 1.55 Å, Crystal structure of a synthetic Fab (R3E9) in complex with the FRB domain of mTOR
5GPG 1.67 Å, Co-crystal structure of the FK506 binding domain of human FKBP25, Rapamycin and the FRB…
5WBH 1.75 Å, Structure of the FRB domain of mTOR bound to a substrate recruitment peptide of S6K1
4DRJ 1.8 Å, o-crystal structure of the PPIase domain of FKBP52, Rapamycin and the FRB fragment of mTOR
3FAP 1.85 Å, Atomic structures of the rapamycin analogs in complex with both human FKBP12 and frb…
8PPZ 1.85 Å, Co-crystal structure of FKBP12, compound 7 and the FRB fragment of mTOR
8XI9 1.85 Å, Crystal structure of FRB-FKBP fusion protein in complex with rapamycin
9PIW 1.9 Å, Crystal structure of a synthetic Fab (1A) in complex with the FRB domain of mTOR
9DL0 2.0 Å, Crystal structure of a synthetic Fab (R3H8) in complex with the FRB domain of mTOR
9PJ1 2.05 Å, Crystal structure of a synthetic Fab (4R) in complex with the ternary assembly of…
9PIU 2.18 Å, Crystal structure of a synthetic Fab (2C) in complex with the FRB domain of mTOR

Browse structure collections

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