9CAF: PDB entry 9CAF

Cryo-EM structure of the reconstituted TRRAP lobe of the human TIP60 complex (composite structure). Determined by electron microscopy at 2.35 Å resolution. Released 18 Jun 2025.

Method
Electron microscopy
Resolution
2.35 Å
Organism
Homo sapiens
Chains
2
Atoms
29,921
Mol. weight
559.68 kDa
Ligands
IHP
Released
18 Jun 2025

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

Secondary structure: helices and β-sheets

9CAF contains 255 α-helices and 31 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.

Chain A: 13 helices, 0 β-strands

ElementResiduesLengthSheet
α-helix2313-23153
α-helix2368-23703
α-helix2371-23799
α-helix2380-23845
α-helix2402-24109
α-helix2419-24257
α-helix2426-24305
α-helix2431-24344
α-helix2446-24538
α-helix2456-247419
α-helix2495-25028
α-helix2509-25113
α-helix2512-253019
Chain D: 242 helices, 31 β-strands
ElementResiduesLengthSheet
α-helix14-2815
α-helix35-4713
α-helix49-524
α-helix58-7518
β-strand8111
α-helix85-9915
α-helix104-1063
α-helix107-12317
β-strand12512
α-helix126-14217
α-helix145-1473
α-helix149-16921
α-helix170-1745
α-helix178-1803
α-helix187-1893
β-strand194-19961
β-strand209-21461
α-helix215-2162
β-strand21712
α-helix222-23817
α-helix244-2485
α-helix250-25910
α-helix264-2674
α-helix274-29421
α-helix299-31921
α-helix325-33915
α-helix342-3476
α-helix351-3544
α-helix357-3604
α-helix365-3662
α-helix367-3715
α-helix372-38615
α-helix392-40716
α-helix413-43725
α-helix441-45818
α-helix459-4635
α-helix464-4707
α-helix539-56426
α-helix568-5692
α-helix580-5823
α-helix583-59917
α-helix600-6045
β-strand605-60733
β-strand613-61533
α-helix616-6172
α-helix626-64015
α-helix644-66421
α-helix666-6683
α-helix669-6779
α-helix679-69517
α-helix697-7015
α-helix704-72320
α-helix725-74723
α-helix754-76714
α-helix773-7797
α-helix783-79513
α-helix800-81112
α-helix817-8204
α-helix821-8233
α-helix824-83512
α-helix839-85517
α-helix858-8658
α-helix869-87911
α-helix885-89814
α-helix899-9024
α-helix905-9062
α-helix909-9113
β-strand923-92864
β-strand933-93864
α-helix940-95112
α-helix957-97317
β-strand97515
α-helix981-9888
α-helix992-9954
α-helix997-9993
α-helix1005-10073
α-helix1011-10122
α-helix1013-103018
α-helix1035-105723
α-helix1070-10723
α-helix1074-10763
α-helix1091-110111
α-helix1107-112620
α-helix1129-11335
α-helix1136-115015
α-helix1154-117017
α-helix1173-11786
α-helix1180-119314
α-helix1202-121817
α-helix1220-12223
α-helix1228-124821
α-helix1254-127118
α-helix1275-12795
α-helix1283-12864
α-helix1302-131716
α-helix1330-134415
α-helix1347-13515
α-helix1363-137412
α-helix1383-139412
α-helix1399-141315
α-helix1420-143314
α-helix1437-14393
α-helix1442-145413
α-helix1456-14583
α-helix1461-148424
α-helix1492-150312
α-helix1511-15133
α-helix1514-152815
α-helix1537-15448
α-helix1548-15558
α-helix1558-15625
α-helix1564-157411
α-helix1580-15878
α-helix1591-15966
α-helix1613-163422
α-helix1643-165412
α-helix1656-16638
α-helix1674-168815
α-helix1693-16986
α-helix1701-17044
α-helix1712-17165
α-helix1717-17215
α-helix1722-17254
α-helix1728-173912
α-helix1748-17547
α-helix1755-17595
α-helix1760-176910
α-helix1772-17765
α-helix1789-17924
α-helix1793-17975
α-helix1808-182417
α-helix1826-18294
α-helix1838-184710
α-helix1848-18503
α-helix1859-187517
α-helix1880-189112
α-helix1899-191618
α-helix1920-193415
α-helix1939-195113
α-helix1953-19564
α-helix1957-19593
α-helix1960-197617
α-helix1982-200625
α-helix2070-20723
α-helix2073-209018
α-helix2101-211515
α-helix2131-21366
α-helix2137-21393
α-helix2146-216217
α-helix2165-21728
α-helix2175-21828
α-helix2188-220417
α-helix2206-22083
α-helix2219-224123
α-helix2247-22493
α-helix2250-226011
α-helix2265-22695
α-helix2272-228716
α-helix2301-231313
α-helix2322-23276
α-helix2328-23336
α-helix2334-23396
α-helix2343-235816
α-helix2371-238818
α-helix2393-240816
α-helix2416-24205
α-helix2422-24298
α-helix2434-244613
α-helix2452-24576
α-helix2458-24625
α-helix2465-24684
α-helix2474-24829
β-strand249016
α-helix24911
β-strand250015
α-helix2501-25022
α-helix2505-25095
α-helix2512-25187
α-helix2568-258518
β-strand258816
α-helix2589-260214
α-helix2604-262017
α-helix2624-263916
α-helix2641-26488
α-helix2653-266210
α-helix2672-268110
α-helix2685-269814
α-helix2721-273616
α-helix2740-275011
α-helix2754-276411
α-helix2768-278619
α-helix2796-281217
α-helix2816-28238
α-helix2831-28377
α-helix2838-28414
α-helix2844-285613
α-helix2860-28623
α-helix2863-287614
α-helix2883-28853
α-helix2886-290217
α-helix2910-29123
α-helix2913-293422
α-helix2943-295816
α-helix2967-299024
α-helix2999-302123
α-helix3025-30328
α-helix3033-30375
α-helix3043-306119
α-helix3066-307813
α-helix3081-30833
α-helix3086-310217
α-helix3106-311914
α-helix3124-314118
α-helix3144-315714
α-helix3163-317614
α-helix3177-31793
α-helix3185-31939
α-helix3199-32024
α-helix3206-32149
α-helix3218-323114
α-helix3233-325422
α-helix3263-32653
α-helix3266-328116
α-helix3283-329513
α-helix3296-32994
α-helix3301-33022
α-helix3303-332422
α-helix3326-33283
β-strand333317
α-helix3336-334712
α-helix3366-337813
α-helix3382-339413
β-strand340417
α-helix3405-342319
β-strand3429-343138
α-helix3432-34343
α-helix3437-34415
α-helix34491
β-strand345019
α-helix34511
α-helix3464-34652
β-strand346619
β-strand3467-347048
β-strand3473-347978
β-strand3482-3491108
β-strand3496-350388
α-helix3507-352721
β-strand3545-354738
β-strand3552-355658
β-strand3561-3563310
α-helix3564-357512
α-helix3581-359515
α-helix3602-361514
α-helix3621-36299
α-helix3633-365624
β-strand3659111
α-helix3660-36612
β-strand3667-3670410
β-strand3676-3678310
β-strand3683111
β-strand3685112
β-strand3692112
α-helix3704-371411
α-helix3715-37195
α-helix3720-373011
α-helix3733-37353
α-helix3737-375620
α-helix3770-37745
α-helix3775-379723
α-helix3800-38023
α-helix3805-381410
α-helix3816-38194
α-helix3824-38263

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
E1A-binding protein p400,Haloalkane dehalogenase chimeraAprotein1122Homo sapiensP0A3G4 (AlphaFold model), Q96L91
Isoform 2 of Transformation/transcription domain-associated proteinDprotein3811Homo sapiensQ9Y4A5
Sequence of entity 1 (A), FASTA
>9CAF_1 E1A-binding protein p400,Haloalkane dehalogenase chimera (chains A)
MAEQSKRPRLEVGHQGVVFQHPGADAGVPLQQLMPTAQGGMPPTPQAAQLAGQRQSQQQY
DPSTGPPVQNAASLHTPLPQLPGRLPPAGVPTAALSSALQFAQQPQVVEAQTQLQIPVKT
QQPNVPIPAPPSSQLPIPPSQPAQLALHVPTPGKVQVQASQLSSLPQMVASTRLPVDPAP
PCPRPLPTSSTSSLAPVSGSGPGPSPARSSPVNRPSSATNKALSPVTSRTPGVVASAPTK
PQSPAQNATSSQDSSQDTLTEQITLENQVHQRIAELRKAGLWSQRRLPKLQEAPRPKSHW
DYLLEEMQWMATDFAQERRWKVAAAKKLVRTVVRHHEEKQLREERGKKEEQSRLRRIAAS
TAREIECFWSNIEQVVEIKLRVELEEKRKKALNLQKVSRRGPGSSDSENMPCDEEPSQLE
ELADFMEQLTPIEKYALNYLELFHTSIEQEKERNSEDAVMTAVRAWEFWNLKTLQEREAR
LRLEQEEAELLTYTREDAYSMEYVYEDVDGQTEVMPLWTPPTPPQDDSDIYLDSVMCLMY
EATPIPEAKLPPVYVRKERKRHKTDPSAAGRKKKQRHGEAVVPPRSLFDRATPGLLKIRR
EGKEQKKNILLKQQVPFAKPLPTFAKPTAEPGQDDNPEWLISEDWALLQAVKQLLELPLN
LTIVSPAHTPNWDLVSDVVNSCSRIYRSSKQCRNRYENVIIPREEKSKNNRPLLRTSQIY
AQDENATHTQLYTSHFDLMKMTAGKRPPIKPLLGMNPFQKNPPKHASVLAESGINYDKPL
PPIQVASLRAERIAKEKKALDGSGGSGEDLYFQSGGSMAEIGTGFPFDPHYVEVLGERMH
YVDVGPRDGTPVLFLHGNPTSSYVWRNIIPHVAPTHRCIAPDLIGMGKSDKPDLGYFFDD
HVRFMDAFIEALGLEEVVLVIHDWGSALGFHWAKRNPERVKGIAFMEFIRPIPTWDEWPE
FARETFQAFRTTDVGRKLIIDQNVFIEGTLPMGVVRPLTEVEMDHYREPFLNPVDREPLW
RFPNELPIAGEPANIVALVEEYMDWLHQSPVPKLLFWGTPGVLIPPAEAARLAKSLPNCK
AVDIGPGLNLLQEDNPDLIGSEIARWLSTLEISGGGHHHHHH
Sequence of entity 2 (D), FASTA
>9CAF_2 Isoform 2 of Transformation/transcription domain-associated protein (chains D)
MAFVATQGATVVDQTTLMKKYLQFVAALTDVNTPDETKLKMMQEVSENFENVTSSPQYST
FLEHIIPRFLTFLQDGEVQFLQEKPAQQLRKLVLEIIHRIPTNEHLRPHTKNVLSVMFRF
LETENEENVLICLRIIIELHKQFRPPITQEIHHFLDFVKQIYKELPKVVNRYFENPQVIP
ENTVPPPEMVGMITTIAVKVNPEREDSETRTHSIIPRGSLSLKVLAELPIIVVLMYQLYK
LNIHNVVAEFVPLIMNTIAIQVSAQARQHKLYNKELYADFIAAQIKTLSFLAYIIRIYQE
LVTKYSQQMVKGMLQLLSNCPAETAHLRKELLIAAKHILTTELRNQFIPCMDKLFDESIL
IGSGYTARETLRPLAYSTLADLVHHVRQHLPLSDLSLAVQLFAKNIDDESLPSSIQTMSC
KLLLNLVDCIRSKSEQESGNGRDVLMRMLEVFVLKFHTIARYQLSAIFKKCKPQSELGAV
EAALPGSGGGASGGGSGEKDKEDKQTFQVTDCRSLVKTLVCGVKTITWGITSCKAPGEAQ
FIPNKQLQPKETQIYIKLVKYAMQALDIYQVQIAGNGQTYIRVANCQTVRMKEEKEVLEH
FAGVFTMMNPLTFKEIFQTTVPYMVERISKNYALQIVANSFLANPTTSALFATILVEYLL
DRLPEMGSNVELSNLYLKLFKLVFGSVSLFAAENEQMLKPHLHKIVNSSMELAQTAKEPY
NYFLLLRALFRSIGGGSHDLLYQEFLPLLPNLLQGLNMLQSGLHKQHMKDLFVELCLTVP
VRLSSLLPYLPMLMDPLVSALNGSQTLVSQGLRTLELCVDNLQPDFLYDHIQPVRAELMQ
ALWRTLRNPADSISHVAYRVLGKFGGSNRKMLKESQKLHYVVTEVQGPSITVEFSDCKAS
LQLPMEKAIETALDCLKSANTEPYYRRQAWEVIKCFLVAMMSLEDNKHALYQLLAHPNFT
EKTIPNVIISHRYKAQDTPARKTFEQALTGAFMSAVIKDLRPSALPFVASLIRHYTMVAV
AQQCGPFLLPCYQVGSQPSTAMFHSEENGSKGMDPLVLIDAIAICMAYEEKELCKIGEVA
LAVIFDVASIILGSKERACQLPLFSYIVERLCACCYEQAWYAKLGGVVSIKFLMERLPLT
WVLQNQQTFLKALLFVMMDLTGEVSNGAVAMAKTTLEQLLMRCATPLKDEERAEEIVAAQ
EKSFHHVTHDLVREVTSPNSTVRKQAMHSLQVLAQVTGKSVTVIMEPHKEVLQDMVPPKK
HLLRHQPANAQIGLMEGNTFCTTLQPRLFTMDLNVVEHKVFYTELLNLCEAEDSALTKLP
CYKSLPSLVPLRIAALNALAACNYLPQSREKIIAALFKALNSTNSELQEAGEACMRKFLE
GATIEVDQIHTHMRPLLMMLGDYRSLTLNVVNRLTSVTRLFPNSFNDKFCDQMMQHLRKW
MEVVVITHKGGQRSDGNEMKICSAIINLFHLIPAAPQTLVKPLLEVVMKTERAMLIEAGS
PFREPLIKFLTRHPSQTVELFMMEATLNDPQWSRMFMSFLKHKDARPLRDVLAANPNRFI
TLLLPGGAQTAVRPGSPSTSTMRLDLQFQAIKIISIIVKNDDSWLASQHSLVSQLRRVWV
SENFQERHRKENMAATNWKEPKLLAYCLLNYCKRNYGDIELLFQLLRAFTGRFLCNMTFL
KEYMEEEIPKNYSIAQKRALFFRFVDFNDPNFGDELKAKVLQHILNPAFLYSFEKGEGEQ
LLGPPNPEGDNPESITSVFITKVLDPEKQADMLDSLRIYLLQYATLLVEHAPHHIHDNNK
NRNSKLRRLMTFAWPCLLSKACVDPACKYSGHLLLAHIIAKFAIHKKIVLQVFHSLLKAH
AMEARAIVRQAMAILTPAVPARMEDGHQMLTHWTRKIIVEEGHTVPQLVHILHLIVQHFK
VYYPVRHHLVQHMVSAMQRLGFTPSVTIEQRRLAVDLSEVVIKWELQRIKDQQPDSDMDP
NSSGEGGDYKDHDIDYKDDDDKGSVSSSIKRGLSVDSAQEVKRFRTATGAISAVFGRSQS
LPGADSLLAKPIDKQHTDTVVNFLIRVACQVNDNTNTAGSPGEVLSRRCVNLLKTALRPD
MWPKSELKLQWFDKLLMTVEQPNQVNYGNICTGLEVLSFLLTVLQSPAILSSFKPLQRGI
AACMTCGNTKVLRAVHSLLSRLMSIFPTEPSTSSVASKYEELECLYAAVGKVIYEGLTNY
EKATNANPSQLFGTLMILKSACSNNPSYIDRLISVFMRSLQKMVREHLNPQAASGSTEAT
SGTSELVMLSLELVKTRLAVMSMEMRKNFIQAILTSLIEKSPDAKILRAVVKIVEEWVKN
NSPMAANQTPTLREKSILLVKMMTYIEKRFPEDLELNAQFLDLVNYVYRDETLSGSELTA
KLEPAFLSGLRCAQPLIRAKFFEVFDNSMKRRVYERLLYVTCSQNWEAMGNHFWIKQCIE
LLLAVCEKSTPIGTSCQGAMLPSITNVINLADSHDRAAFAMVTHVKQEPRERENSESKEE
DVEIDIELAPGDQTSTPKTKELSEKDIGNQLHMLTNRHDKFLDTLREVKTGALLSAFVQL
CHISTTLAEKTWVQLFPRLWKILSDRQQHALAGEISPFLCSGSHQVQRDCQPSALNCFVE
AMSQCVPPIPIRPCVLKYLGKTHNLWFRSTLMLEHQAFEKGLSLQIKPKQTTEFYEQESI
TPPQQEILDSLAELYSLLQEEDMWAGLWQKRCKYSETATAIAYEQHGFFEQAQESYEKAM
DKAKKEHERSNASPAIFPEYQLWEDHWIRCSKELNQWEALTEYGQSKGHINPYLVLECAW
RVSNWTAMKEALVQVEVSCPKEMAWKVNMYRGYLAICHPEEQQLSFIERLVEMASSLAIR
EWRRLPHVVSHVHTPLLQAAQQIIELQEAAQINAGLQPTNLGRNNSLHDMKTVVKTWRNR
LPIVSDDLSHWSSIFMWRQHHYQAIVTAYENSSQHDPSSNNAMLGVHASASAIIQYGKIA
RKQGLVNVALDILSRIHTIPTVPIVDCFQKIRQQVKCYLQLAGVMGKNECMQGLEVIEST
NLKYFTKEMTAEFYALKGMFLAQINKSEEANKAFSAAVQMHDVLVKAWAMWGDYLENIFV
KERQLHLGVSAITCYLHACRHQNESKSRKYLAKVLWLLSFDDDKNTLADAVDKYCIGVPP
IQWLAWIPQLLTCLVGSEGKLLLNLISQVGRVYPQAVYFPIRTLYLTLKIEQRERYKSDP
GPIRATAPMWRCSRIMHMQRELHPTLLSSLEGIVDQMVWFRENWHEEVLRQLQQGLAKCY
SVAFEKSGAVSDAKITPHTLNFVKKLVSTFGVGLENVSNVSTMFSSAASESLARRAQATA
QDPVFQKLKGQFTTDFDFSVPGSMKLHNLISKLKKWIKILEAKTKQLPKFFLIEEKCRFL
SNFSAQTAEVEIPGEFLMPKPTHYYIKIARFMPRVEIVQKHNTAARRLYIRGHNGKIYPY
LVMNDACLTESRREERVLQLLRLLNPCLEKRKETTKRHLFFTVPRVVAVSPQMRLVEDNP
SSLSLVEIYKQRCAKKGIEHDNPISRYYDRLATVQARGTQASHQVLRDILKEVQSNMVPR
SMLKEWALHTFPNATDYWTFRKMFTIQLALIGFAEFVLHLNRLNPEMLQIAQDTGKLNVA
YFRFDINDATGDLDANRPVPFRLTPNISEFLTTIGVSGPLTASMIAVARCFAQPNFKVDG
ILKTVLRDEIIAWHKKTQEDTSSPLSAAGQPENMDSQQLVSLVQKAVTAIMTRLHNLAQF
EGGESKVNTLVAAANSLDNLCRMDPAWHPWL

Ligands and cofactors

IDNameFormulaCopies
IHPInositol hexakisphosphateC6 H18 O24 P61

Primary citation

Structural divergence of H2A.Z-associated human chromatin remodelers SRCAP and TIP60. Park, G., Patel, A.B., Wu, C. et al. To be published.

Other PDB entries of the same protein (UniProt P0A3G4 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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