9V6E: Human full length KICSTOR complex

Cryo-EM structure of human full length KICSTOR complex (state 1). Determined by electron microscopy at 3.19 Å resolution. Released 12 Nov 2025.

Method: Electron microscopy
Resolution: 3.19 Å
Organism: Homo sapiens
Chains: 4
Atoms: 15,625
Mol. weight: 526.42 kDa
Released: 12 Nov 2025

Explore 9V6E in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9V6E contains 78 α-helices and 115 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: 44 helices, 47 β-strands

Element	Residues	Length	Sheet
α-helix	1717-1728	12
β-strand	1736-1742	7	1
α-helix	1749-1762	14
β-strand	1765	1	1
β-strand	1768-1772	5	1
β-strand	1778-1783	6	1
β-strand	1918-1923	6	1
β-strand	1927-1933	7	1
α-helix	1944-1978	35
α-helix	1990-1995	6
α-helix	2025-2028	4
α-helix	2037-2039	3
β-strand	2040-2047	8	2
α-helix	2048-2049	2
α-helix	2062-2071	10
β-strand	2075	1	2
β-strand	2082-2086	5	2
β-strand	2093-2101	9	2
β-strand	2158-2164	7	2
α-helix	2171	1
α-helix	2172-2176	5
α-helix	2177-2198	22
α-helix	2201-2204	4
α-helix	2205-2211	7
β-strand	2221-2225	5	3
α-helix	2228-2233	6
α-helix	2234-2244	11
β-strand	2250	1	4
α-helix	2263-2264	2
β-strand	2279-2280	2	4
β-strand	2296-2297	2	4
β-strand	2300-2302	3	3
β-strand	2354-2358	5	3
α-helix	2367-2386	20
α-helix	2387-2391	5
α-helix	2506-2509	4
α-helix	2520-2524	5
α-helix	2525-2527	3
α-helix	2533-2536	4
β-strand	2546	1	5
α-helix	2551-2553	3
α-helix	2554-2567	14
β-strand	2579	1	6
β-strand	2588	1	6
β-strand	2609	1	5
β-strand	2612	1	7
α-helix	2615-2619	5
β-strand	2649-2650	2	7
β-strand	2653-2655	3	5
β-strand	2658-2660	3	5
β-strand	2663-2664	2	7
α-helix	2668-2699	32
β-strand	2704	1	8
β-strand	2706	1	8
α-helix	2721-2723	3
α-helix	2729-2734	6
α-helix	2764-2766	3
α-helix	2789-2805	17
α-helix	2808-2822	15
α-helix	2834-2842	9
β-strand	2845-2852	8	9
α-helix	2907-2925	19
α-helix	2929	1
β-strand	2930-2931	2	9
β-strand	2981-2984	4	9
β-strand	2987	1	10
β-strand	2990	1	10
β-strand	2991-2999	9	9
β-strand	3002-3010	9	9
α-helix	3026-3033	8
α-helix	3044-3058	15
α-helix	3071-3081	11
β-strand	3092-3101	10	11
α-helix	3107-3116	10
β-strand	3125-3126	2	11
β-strand	3140-3147	8	11
β-strand	3163-3171	9	11
β-strand	3186-3196	11	11
α-helix	3249-3283	35
α-helix	3301-3310	10
β-strand	3314-3315	2	12
α-helix	3316-3319	4
α-helix	3322-3328	7
α-helix	3331-3344	14
β-strand	3349	1	12
β-strand	3352-3353	2	13
β-strand	3360-3361	2	13
β-strand	3364	1	12
β-strand	3373-3379	7	12
β-strand	3384-3390	7	12
α-helix	3409-3431	23

Chain B: 5 helices, 30 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	14
β-strand	10-13	4	15
β-strand	23-26	4	16
β-strand	35-39	5	16
β-strand	44-48	5	16
β-strand	57-60	4	16
β-strand	65-71	7	17
β-strand	80-85	6	17
β-strand	89-93	5	17
β-strand	119-122	4	17
β-strand	127	1	18
β-strand	131-133	3	18
β-strand	142-147	6	18
β-strand	151-158	8	18
β-strand	170-178	9	18
α-helix	182-183	2
β-strand	186-190	5	19
β-strand	196-202	7	19
β-strand	206-210	5	19
β-strand	240-244	5	19
β-strand	256-260	5	20
β-strand	275-280	6	20
β-strand	284-289	6	20
α-helix	295	1
β-strand	296-302	7	20
β-strand	311-313	3	14
β-strand	322-325	4	14
β-strand	331-335	5	14
β-strand	341-345	5	14
β-strand	350-359	10	15
β-strand	365-373	9	15
β-strand	377-381	5	15
α-helix	397-400	4
α-helix	402-410	9
α-helix	419-430	12

Chain C: 8 helices, 29 β-strands

Element	Residues	Length	Sheet
β-strand	14-21	8	21
β-strand	31	1	22
β-strand	41-44	4	22
β-strand	50-58	9	22
β-strand	61-69	9	22
β-strand	79-87	9	23
α-helix	88-89	2
β-strand	95-105	11	23
β-strand	108-116	9	23
α-helix	127-130	4
β-strand	136-138	3	23
β-strand	146-153	8	24
β-strand	156-164	9	24
β-strand	170-176	7	24
β-strand	181-185	5	24
α-helix	192-194	3
β-strand	201-208	8	25
β-strand	214-221	8	25
β-strand	225-232	8	25
β-strand	238-245	8	25
β-strand	252-256	5	26
β-strand	274-278	5	26
β-strand	285-288	4	26
α-helix	290-293	4
β-strand	298-300	3	26
α-helix	301	1
β-strand	310-316	7	27
β-strand	325-330	6	27
β-strand	334-340	7	27
α-helix	343-345	3
β-strand	354-358	5	27
β-strand	361	1	27
β-strand	366-372	7	21
α-helix	379-380	2
β-strand	381-386	6	21
β-strand	389-395	7	21
α-helix	399-417	19

Chain D: 21 helices, 9 β-strands

Element	Residues	Length	Sheet
α-helix	15-21	7
α-helix	25-27	3
α-helix	31-42	12
α-helix	53-68	16
α-helix	90-104	15
α-helix	123-150	28
α-helix	158-170	13
α-helix	178-180	3
α-helix	181-205	25
α-helix	209-226	18
α-helix	253-272	20
α-helix	275-279	5
α-helix	285-290	6
α-helix	297-305	9
β-strand	312	1	28
β-strand	313	1	29
β-strand	315-317	3	30
α-helix	342-345	4
β-strand	348	1	30
β-strand	352	1	29
α-helix	361-365	5
α-helix	366-368	3
α-helix	373-376	4
β-strand	391-393	3	28
β-strand	396-399	4	30
β-strand	402-404	3	30
β-strand	407-409	3	28
α-helix	414-417	4
α-helix	418-431	14
α-helix	433-437	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
KICSTOR complex protein SZT2	A	protein	3432	Homo sapiens	Q5T011 (AlphaFold model)
KICSTOR complex protein ITFG2	B	protein	447	Homo sapiens	Q969R8 (AlphaFold model)
KICSTOR complex protein kaptin	C	protein	436	Homo sapiens	Q9Y664 (AlphaFold model)
KICSTOR subunit 2	D	protein	445	Homo sapiens	Q96MD2 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>9V6E_1 KICSTOR complex protein SZT2 (chains A)
MASERPEPEVEEAGQVFLLMKKDYRISRNVRLAWFLSHLHQTVQATPQEMLLQSEQELEV
LSVLPPGWQPDEPVVPRPFLLVPSTRVTFLAWQYRFVIELDLSPSTGIVDDSTGEILFDE
VFHALSRCLGGLLRPFRVPGSCIDFQPEIYVTIQAYSSIIGLQSHQVLVQGCLLDPSQRE
VFLQQIYEQLCLFEDKVATMLQQQYDPQSQAEDQSPDSGDLLGRKVGVSMVTADLGLVSM
IRQGILALQLLPSNSSAGIIVITDGVTSVPDVAVCETLLNQLRSGTVACSFVQVGGVYSY
DCSFGHVPNVELMKFIAMATFGSYLSTCPEPEPGNLGLTVYHRAFLLYSFLRSGEALNPE
YYCGSQHRLFNEHLVSASSNPALALRRKKHTEKEVPADLVSTVSVRLREGYSVREVTLAK
GGSQLEVKLVLLWKHNMRIEYVAMAPWPLEPEGPRVTRVEVTMEGGYDILHDVSCALRQP
IRSLYRTHVIRRFWNTLQSINQTDQMLAHLQSFSSVPEHFTLPDSTKSGVPLFYIPPGST
TPVLSLQPSGSDSSHAQFAAYWKPVLSMDANSWQRWLHMHRLVLILEHDTPIPKHLHTPG
SNGRYSTIQCRISHSSLTSLLRDWSSFVLVEGYSYVKLLSSAPDQPPNSFYMVRIISKAP
CMVLRLGFPIGTPAPARHKIVSGLREEILRLRFPHRVQSKEPTPKVKRKGLGGAGGGSSP
SKSPPVLGPQQALSDRPCLVVLHKPLDKLLIRYEKLPLDYRAPFLLTLEPPGPLPLVSGR
SASSSLASLSRYLYHQRWLWSVPSGLAPALPLSAIAQLLSILTEVRLSEGFHFACSGEGI
INMVLELPIQNEPPGQAAAEEKHTCVVQYILFPPHSTSTKDSFSTDDDNDVEVEALEGDS
ELNLVTEVWVEPQYGRVGPGPGIWKHLQDLTYSEIPQALHPRDAACIGSMLSFEYLIQLC
QSKEWGPLPPEPRVSDGLDQGGDTCVHEIPFHFDLMGLLPQCQQLQMFFLLLAREPEGVP
FAEGSCPANDMVLCLLHSCLGQELSDREIPLTPVDQAAFLSEVLRRTCHVPGAEGPLLGV
HGIPKEQAVGSTQATGDSAFTSLSVGLPETLKPLISAQPPQWRCYARLVNPQHVFLTFLP
ATFSDVQRLAACGLEGPPQEETKPKFGDWSGAPSLKDLGGTGIKATKSHVPVLSVTLASD
NAQNQGELSPPFRRDLQAYAGRQASQTESADGPRTRCPVYIYSCSLEALREQMVGMQPPQ
APRDLIFRTQFLDHPSPSSAWMEPRYKEAANHCALLQEHAQRCYVRGLFRSLQQAQSVTS
QDLLTAVDACEELLQEIDITPFLLALCGHTWGLPHAPPSPGPLSPGPFSSSMEEGAEPRE
RAILASESSIETEDLSEPEFQSTRVPGIPDPGPEISLTDVCQLRGEAHGALHSVIQEKFL
EISRLHFRTVPSNPHYFFYCPPSSRREDEGPRDTVDRKISDLEFSEAELMGEEGDTSACC
VVTESDPELEVEYRESRESDLGPAGLDSASLSDVDTVNPDEDSFSILGGDSPTGPESFLH
DLPPLFLHLTCSVRLRGQHSSVPVCSLPTCLGQVLSSLEGPPVGGRVPLRDLSVTLDVFM
LTLPLEVELPTASDPQHHRSTSESSASFPRSPGQPSSLRSDDGLGPPLPPPEEERHPGLS
NLATPHRLAIETTMNEIRWLLEDEMVGALRRGGIPQSPALHRAAAHIHSSPGRSTCLRQT
LPLSFVFGPERSLTQFKEEFRRLHLPGHVLLEDPDSGFFFVAAGQQPGGSHGEPSSAAWA
WHSHEDRAEGIEGETLTASPQAPGSPEDSEGVPLISLPRVPQGGSQPGPSRGLSLMSSQG
SVDSDHLGYDGGSSGSDSEGPNDTLGEKAPFTLRTPPGPAPPQPSLSGLPGPCLPDFWLI
VRVLQDRVEVYAHARSLIREDGGPGTECRHLQQLLVRRVGEICREVNQRLLLQDLHDSHV
CNSLLVAESEEDLWRSETPFHSRQRAPLPSDDYAADESCAPRGYLAATMQFVPGHFSCDV
VWGTVIRVHSRLKMGPSMGVSRAIQALRSVLNAFSVVNRKNMFVYQERATKAVYYLRLLE
TSCSDRPWKGDALPPSLALSRSQEPIYSEEASGPRSPLDMVSSRSSDAARPVGQVDRHIQ
LLVHGVGQAGPEITDELVRVLCRRLDEATLDVITVMLVRNCKLTPADVEFIQPPGSLPSE
VLHLALPTSCRPWLPALAWYLRQNLLIFLHSPKYTDSNSRNHFQHPLPPQGGLPDLDIYL
YNKPGGQGTGGKGVACITLAFVDEGGAPLSLALWPPSSPGPPDPLREEEFEQLTQVIRCP
VVVDSSSAQNGAPRLRLDVWEKGNISIVQLEEKLRGAARQALADAIIELQLLPASLCTED
TPTGSLRNGSLETKSSAGRASTFPPAPVPGEPVTPPSKAGRRSFWDMLSKTECGDLGSPK
TTDDIVLDRPEDTRGRRRHKTESVRTPGGAERAPGSDSGAQRQKRRTTQLEEGEVGTLHP
VFARVAQRWMEFMVQIGCASVSRSSAHMVSRFLLPSILSEFTALVTSMAGDTSVRIFEQH
LGSEPEIFGPCSPGQLGPSPRPAAERHLLLLGRNFLQWRRPTQQAAKAMQRFEPGGDGSS
GRNAPRQRLLLLEVVDKKLQLLTYNWAPDLGAALGRALVRLVQWQNARAHLIFCLLSQKL
GLFHHYGQLDFPVRDEKEPNPFLLPTMEVETLIRSASPPLSREQGRLSGSSRGGGPLPLD
TFPFDEALRDITAARPSSVLGPVPRPPDPVTYHGQQFLEIKMAERRELERQMKMENLFVT
WQQRSTPATMPISAGELETLKQSSRLVHYCATAMLFDPAAWLHGPPETSGPPDGQRRHRP
ESGSGSREAPTSCESLDVSPPGAREEPWLKELSLAFLQQYVQYLQSIGFVLVPLRPPSPA
RSTSRPRAMAILGTEGRGSFSCPKTKTDGSPKSTSSPVTTYHLQRALPGGIILMELAFQG
CYFCVKQFALECSRIPMGQAVNSQLSMLFTEECDKVRDLMHVHSFSYDFHLRLVHQHVLG
AHLVLRHGYHLTTFLRHFLAHHPDGPHFGRNHIYQGTLELPTPLIAAHQLYNYVADHASS
YHMKPLRMARPGGPEHNEYALVSAWHSSGSYLDSEGLRHQDDFDVSLLVCHCAAPFEEQG
EAERHVLRLQFFVVLTSQRELFPRLTADMRRFRKPPRLPPEPEAPGSSAGSPGEASGLIL
APGPAPLFPPLAAEVGMARARLAQLVRLAGGHCRRDTLWKRLFLLEPPGPDRLRLGGRLA
LAELEELLEAVHAKSIGDIDPQLDCFLSMTVSWYQSLIKVLLSRFPQSCRHFQSPDLGTQ
YLVVLNQKFTDCFVLVFLDSHLGKTSLTVVFREPFPVQPQDSESPPAQLVSTYHHLESVI
NTACFTLWTRLL

Sequence of entity 2 (B), FASTA

>9V6E_2 KICSTOR complex protein ITFG2 (chains B)
MRSVSYVQRVALEFSGSLFPHAICLGDVDNDTLNELVVGDTSGKVSVYKNDDSRPWLTCS
CQGMLTCVGVGDVCNKGKNLLVAVSAEGWFHLFDLTPAKVLDASGHHETLIGEEQRPVFK
QHIPANTKVMLISDIDGDGCRELVVGYTDRVVRAFRWEELGEGPEHLTGQLVSLKKWMLE
GQVDSLSVTLGPLGLPELMVSQPGCAYAILLCTWKKDTGSPPASEGPTDGSRETPAARDV
VLHQTSGRIHNKNVSTHLIGNIKQGHGTESSGSGLFALCTLDGTLKLMEEMEEADKLLWS
VQVDHQLFALEKLDVTGNGHEEVVACAWDGQTYIIDHNRTVVRFQVDENIRAFCAGLYAC
KEGRNSPCLVYVTFNQKIYVYWEVQLERMESTNLVKLLETKPEYHSLLQELGVDPDDLPV
TRALLHQTLYHPDQPPQCAPSSLQDPT

Sequence of entity 3 (C), FASTA

>9V6E_3 KICSTOR complex protein kaptin (chains C)
MMGEAAVAAGPCPLREDSFTRFSSQSNVYGLAGGAGGRGELLAATLKGKVLGFRYQDLRQ
KIRPVAKELQFNYIPVDAEIVSIDTFNKSPPKRGLVVGITFIKDSGDKGSPFLNIYCDYE
PGSEYNLDSIAQSCLNLELQFTPFQLCHAEVQVGDQLETVFLLSGNDPAIHLYKENEGLH
QFEEQPVENLFPELTNLTSSVLWLDVHNFPGTSRRLSALGCQSGYVRVAHVDQRSREVLQ
MWSVLQDGPISRVIVFSLSAAKETKDRPLQDEYSVLVASMLEPAVVYRDLLNRGLEDQLL
LPGSDQFDSVLCSLVTDVDLDGRPEVLVATYGQELLCYKYRGPESGLPEAQHGFHLLWQR
SFSSPLLAMAHVDLTGDGLQELAVVSLKGVHILQHSLIQASELVLTRLRHQVEQRRRRLQ
GLEDGAGAGPAENAAS

Sequence of entity 4 (D), FASTA

>9V6E_4 KICSTOR subunit 2 (chains D)
MGESIPLAAPVPVEQAVLETFFSHLGIFSYDKAKDNVEKEREANKSAGGSWLSLLAALAH
LAAAEKVYHSLTYLGQKLGGQSFFSRKDSIRTIYTSLHNELKKVVTGRGALGGTAPHVEE
LLSHLSEQLCFFVQARMEIADFYEKMYTLSTQKFINAEELVGLLDAIMKKYSSRFHHPIL
SPLESSFQLEVDVLCHLLKAQAQVSEWKFLPSLVNLHSAHTKLQTWGQIFEKQRETKKHL
FGGQSQKAVQPPHLFLWLMKLKNMLLAKFSFYFHEALSRQTTASEMKTLTAKANPDFFGK
ISSFIRKYDAANVSLIFDNRGSESFQGHGYHHPHSYREAPKGVDQYPAVVSLPSDRPVMH
WPNVIMIMTDRTSDLNSLEKVVHFYDDKVQSTYFLTRPEPHFTIVIIFESKKSERDSHFI
SFLNEVSLALKNPKVFASLKPGAKG

Primary citation

Architecture of the human KICSTOR and GATOR1-KICSTOR complexes. Teng, F., Zeng, H., Mai, X. et al. Nat Struct Mol Biol (2025) 32:2587-2600. DOI 10.1038/s41594-025-01693-4 · PubMed

Other PDB entries of the same protein (UniProt Q5T011 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9VAN 2.9 Å, Cryo-EM structure of human full length KICSTOR complex (state 2)
9V80 2.95 Å, Cryo-EM structure of KICSTOR CCC complex (state 4)
9V0J 2.97 Å, Cryo-EM structure of GATOR1-KICSTOR complex
9V86 3.04 Å, Cryo-EM structure of KICSTOR CCC complex (state 3)
9V9N 3.08 Å, Cryo-EM structure of KICSTOR CCC complex (state 5)
9O5A 3.2 Å, The KICSTOR-GATOR1 complex
9O5D 3.34 Å, The KICSTOR-GATOR1-SAMTOR complex
25GE 3.37 Å, Cryo-EM structure of the human KPTN-ITFG2-SZT2(2189-3432) complex
25GF 3.81 Å, Cryo-EM structure of the human KPTN-ITFG2-C12orf66-SZT2(2189-3432) complex
9O5E 5.0 Å, The dimeric KICSTOR-GATOR1 supercomplex

Browse structure collections

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