6BQ1: Human PI4KIIIa lipid kinase complex

Human PI4KIIIa lipid kinase complex. Determined by electron microscopy at 3.6 Å resolution. Released 13 Dec 2017.

Method
Electron microscopy
Resolution
3.6 Å
Organism
Homo sapiens
Chains
6
Atoms
37,163
Mol. weight
607.18 kDa
Ligands
E4S
Released
13 Dec 2017

Explore 6BQ1 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6BQ1 contains 279 α-helices and 36 β-strands across 6 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: 87 helices, 12 β-strands

ElementResiduesLengthSheet
α-helix2-1413
α-helix19-3012
α-helix36-4914
α-helix54-6613
α-helix71-8616
α-helix91-10010
α-helix105-11713
α-helix123-13614
α-helix142-15211
α-helix158-17215
α-helix177-19115
α-helix196-20813
α-helix212-22110
α-helix226-23510
α-helix239-25012
α-helix255-26612
α-helix271-28515
α-helix290-30415
α-helix309-32113
α-helix326-33914
α-helix345-35814
α-helix364-37613
α-helix382-39211
α-helix397-4059
α-helix409-41810
α-helix424-43411
α-helix439-45517
α-helix465-4739
α-helix933-95220
α-helix958-97518
α-helix980-99617
α-helix998-10003
α-helix1004-102219
β-strand1031-103331
β-strand1040-104231
α-helix1047-107024
α-helix1073-108311
α-helix1087-10915
α-helix1098-110912
α-helix1136-115722
α-helix1170-118314
α-helix1186-120116
α-helix1208-12158
α-helix1224-124017
α-helix1245-126117
α-helix1265-12673
α-helix1268-12714
α-helix1273-12753
α-helix1293-131220
α-helix1315-132713
α-helix1343-13453
α-helix1346-136116
α-helix1368-138518
α-helix1389-13902
α-helix1397-141620
α-helix1478-150730
α-helix1517-15193
α-helix1522-153312
α-helix1541-155010
α-helix1552-15576
α-helix1567-157812
α-helix1580-15823
α-helix1589-15935
α-helix1609-16113
α-helix1613-16142
α-helix1617-16204
α-helix1622-16243
α-helix1629-16302
α-helix1632-164413
α-helix1647-16526
α-helix1654-16563
α-helix1658-16625
α-helix1668-167912
α-helix1681-169515
β-strand169612
β-strand170412
α-helix1709-172214
α-helix1726-174621
α-helix1752-17543
α-helix1756-176813
β-strand177513
β-strand178313
β-strand1804-180634
β-strand1846-185164
α-helix1856-187520
β-strand1886-188724
β-strand1893-189754
α-helix1898-18992
α-helix1916-19249
α-helix1930-195324
β-strand196515
α-helix1967-19693
β-strand197115
α-helix1976-19783
α-helix1998-20025
α-helix2011-202717
α-helix2031-204010
α-helix2053-20619
α-helix2067-208317
Chains B and F: 39 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix9-1911
α-helix26-327
α-helix43-5917
α-helix66-683
α-helix73-8816
α-helix93-11018
α-helix114-1229
α-helix135-15319
α-helix168-1725
α-helix173-1775
α-helix178-19417
α-helix216-23217
α-helix235-24713
β-strand24816
α-helix249-2513
α-helix255-27117
β-strand31216
α-helix324-34118
α-helix356-37520
α-helix379-38911
α-helix397-40913
α-helix414-42613
α-helix432-44110
α-helix448-45912
α-helix466-48520
α-helix490-51021
α-helix515-52713
α-helix531-54414
α-helix549-56113
α-helix565-57814
α-helix583-59614
α-helix599-61618
α-helix689-70921
α-helix712-72514
α-helix730-74213
α-helix746-75914
α-helix765-77612
α-helix780-79314
α-helix798-80912
α-helix814-82916
α-helix836-8383
Chains C and G: 14 helices, 4 β-strands
ElementResiduesLengthSheet
α-helix8-169
α-helix25-273
α-helix36-427
α-helix53-6513
α-helix69-757
α-helix79-9012
α-helix101-11313
β-strand12317
β-strand12618
β-strand15918
β-strand16317
α-helix177-18610
α-helix197-20913
α-helix216-2216
α-helix234-24714
α-helix248-2503
α-helix254-27017
α-helix273-28311
Chain E: 86 helices, 12 β-strands
ElementResiduesLengthSheet
α-helix2-1413
α-helix19-3012
α-helix36-4914
α-helix54-6613
α-helix71-8616
α-helix91-10010
α-helix105-11713
α-helix123-13614
α-helix142-15211
α-helix158-17215
α-helix177-19115
α-helix196-20914
α-helix213-22210
α-helix227-23610
α-helix240-25213
α-helix257-26812
α-helix273-28715
α-helix292-30615
α-helix311-32313
α-helix328-34013
α-helix346-35914
α-helix365-37713
α-helix383-39311
α-helix398-4069
α-helix410-41910
α-helix425-43511
α-helix440-45617
α-helix466-4749
α-helix933-95220
α-helix958-97518
α-helix980-99617
α-helix998-10003
α-helix1004-102219
β-strand1031-103339
β-strand1040-104239
α-helix1047-107024
α-helix1073-108311
α-helix1087-10915
α-helix1098-110912
α-helix1136-115722
α-helix1170-118314
α-helix1186-120116
α-helix1208-12158
α-helix1224-124017
α-helix1245-126117
α-helix1265-12673
α-helix1268-12714
α-helix1273-12753
α-helix1293-131220
α-helix1315-132713
α-helix1343-13453
α-helix1346-136116
α-helix1368-138518
α-helix1389-13902
α-helix1397-141620
α-helix1478-150730
α-helix1522-153312
α-helix1541-155010
α-helix1552-15576
α-helix1567-157812
α-helix1580-15823
α-helix1589-15935
α-helix1609-16113
α-helix1613-16142
α-helix1617-16204
α-helix1622-16243
α-helix1629-16302
α-helix1632-164413
α-helix1647-16526
α-helix1654-16563
α-helix1658-16625
α-helix1668-167912
α-helix1681-169515
β-strand1696110
β-strand1704110
α-helix1709-172214
α-helix1726-174621
α-helix1752-17543
α-helix1756-176813
β-strand1775111
β-strand1783111
β-strand1804-1806312
β-strand1846-1851612
α-helix1856-187520
β-strand1886-1887212
β-strand1893-1897512
α-helix1898-18992
α-helix1916-19249
α-helix1930-195324
β-strand1965113
α-helix1967-19693
β-strand1971113
α-helix1976-19783
α-helix1998-20025
α-helix2011-202717
α-helix2031-204010
α-helix2053-20619
α-helix2067-208317

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Phosphatidylinositol 4-kinase III alpha (PI4KA)Aprotein1647Homo sapiensP42356 (AlphaFold model)
Tetratricopeptide repeat protein 7BB, Fprotein863Homo sapiensQ86TV6 (AlphaFold model)
Protein FAM126AC, Gprotein292Homo sapiensQ9BYI3 (AlphaFold model)
Phosphatidylinositol 4-kinase III alpha (PI4KA)Eprotein1648Homo sapiensP42356 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>6BQ1_1 Phosphatidylinositol 4-kinase III alpha (PI4KA) (chains A)
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXMMQC
VIAVADKVFDAFLNMMADKAKTKENEEELERHAQFLLVNFNHIHKRIRRVADKYLSGLVD
KFPHLLWSGTVLKTMLDILQTLSLSLSADIHKDQPYYDIPDAPYRITVPDTYEARESIVK
DFAARCGMILQEAMKWAPTVTKSHLQEYLNKHQNWVSGLSQHTGLAMATESILHFAGYNK
QNTTLGATQLSERPACVKKDYSNFMASLNLRNRYAGEVYGMIRFSGTTGQMSDLNKMMVQ
DLHSALDRSHPQHYTQAMFKLTAMLISSKDCDPQLLHHLCWGPLRMFNEHGMETALACWE
WLLAGKDGVEVPFMREMAGAWHMTVEQKFGLFSAEIKEADPLAASEASQPKPCPPEVTPH
YIWIDFLVQRFEIAKYCSSDQVEIFSSLLQRSMSLNIGGAKGSMNRHVAAIGPRFKLLTL
GLSLLHADVVPNATIRNVLREKIYSTAFDYFSCPPKFPTQGEKRLREDISIMIKFWTAMF
SDKKYLTASQLVPPDNQDTRSNLDITVGSRQQATQGWINTYPLSSGMSTISKKSGMSKKT
NRGSQLHKYYMKRRTLLLSLLATEIERLITWYNPLSAPELELDQAGENSVANWRSKYISL
SEKQWKDNVNLAWSISPYLAVQLPARFKNTEAIGNEVTRLVRLDPGAVSDVPEAIKFLVT
WHTIDADAPELSHVLCWAPTDPPTGLSYFSSMYPPHPLTAQYGVKVLRSFPPDAILFYIP
QIVQALRYDKMGYVREYILWAASKSQLLAHQFIWNMKTNIYLDEEGHQKDPDIGDLLDQL
VEEITGSLSGPAKDFYQREFDFFNKITNVSAIIKPYPKGDERKKACLSALSEVKVQPGCY
LPSNPEAIVLDIDYKSGTPMQSAAKAPYLAKFKVKRCGVSELEKEGLRCRSDSEDECSTQ
EADGQKISWQAAIFKVGDDCRQDMLALQIIDLFKNIFQLVGLDLFVFPYRVVATAPGCGV
IECIPDCTSRDQLGRQTDFGMYDYFTRQYGDESTLAFQQARYNFIRSMAAYSLLLFLLQI
KDRHNGNIMLDKKGHIIHIDFGFMFESSPGGNLGWEPDIKLTDEMVMIMGGKMEATPFKW
FMEMCVRGYLAVRPYMDAVVSLVTLMLDTGLPCFRGQTIKLLKHRFSPNMTEREAANFIM
KVIQSCFLSNRSRTYDMIQYYQNDIPY
Sequence of entity 2 (B, F), FASTA
>6BQ1_2 Tetratricopeptide repeat protein 7B (chains B, F)
MYPYDVPDYAAIAGAPDLKLMATKKAGSRLETEIERCRSECQWERIPELVKQLSAKLIAN
DDMAELLLGESKLEQYLKEHPLRQGASPRGPKPQLTEVRKHLTAALDRGNLKSEFLQESN
LIMAKLNYVEGDYKEALNIYARVGLDDLPLTAVPPYRLRVIAEAYATKGLCLEKLPISSS
TSNLHVDREQDVITCYEKAGDIALLYLQEIERVILSNIQNRSPKPGPAPHDQELGFFLET
GLQRAHVLYFKNGNLTRGVGRFRELLRAVETRTTQNLRMTIARQLAEILLRGMCEQSYWN
PLEDPPCQSPLDDPLRKGANTKTYTLTRRARVYSGENIFCPQENTEEALLLLLISESMAN
RDAVLSRIPEHKSDRLISLQSASVVYDLLTIALGRRGQYEMLSECLERAMKFAFEEFHLW
YQFALSLMAAGKSARAVKVLKECIRLKPDDATIPLLAAKLCMGSLHWLEEAEKFAKTVVD
VGEKTSEFKAKGYLALGLTYSLQATDASLRGMQEVLQRKALLAFQRAHSLSPTDHQAAFY
LALQLAISRQIPEALGYVRQALQLQGDDANSLHLLALLLSAQKHYHDALNIIDMALSEYP
ENFILLFSKVKLQSLCRGPDEALLTCKHMLQIWKSCYNLTNPSDSGRGSSLLDRTIADRR
QLNTITLPDFSDPETGSVHATSVAASRVEQALSEVASSLQSSAPKQGPLHPWMTLAQIWL
HAAEVYIGIGKPAEATACTQEAANLFPMSHNVLYMRGQIAELRGSMDEARRWYEEALAIS
PTHVKSMQRLALILHQLGRYSLAEKILRDAVQVNSTAHEVWNGLGEVLQAQGNDAAATEC
FLTALELEASSPAVPFTIIPRVL
Sequence of entity 3 (C, G), FASTA
>6BQ1_3 Protein FAM126A (chains C, G)
GPGSFTSEKGVVEEWLSEFKTLPETSLPNYATNLKDKSSLVSSLYKVIQEPQSELLEPVC
HQLFEFYRSGEEQLLQFTLQFLPELIWCYLAVSASRNVHSSGCIEALLLGVYNLEIVDKQ
GHTKVLSFTIPSLSKPSVYHEPSSIGSMALTESALSQHGLSKVVYSGPHPQREMLTAQNR
FEVLTFLLLCYNAALTYMPSVSLQSLCQICSRICVCGYPRQHVRKYKGISSRIPVSSGFM
VQMLTGIYFAFYNGEWDLAQKALDDIIYRAQLELYPEPLLVANAIKASLPHG
Sequence of entity 4 (E), FASTA
>6BQ1_4 Phosphatidylinositol 4-kinase III alpha (PI4KA) (chains E)
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXMMQ
CVIAVADKVFDAFLNMMADKAKTKENEEELERHAQFLLVNFNHIHKRIRRVADKYLSGLV
DKFPHLLWSGTVLKTMLDILQTLSLSLSADIHKDQPYYDIPDAPYRITVPDTYEARESIV
KDFAARCGMILQEAMKWAPTVTKSHLQEYLNKHQNWVSGLSQHTGLAMATESILHFAGYN
KQNTTLGATQLSERPACVKKDYSNFMASLNLRNRYAGEVYGMIRFSGTTGQMSDLNKMMV
QDLHSALDRSHPQHYTQAMFKLTAMLISSKDCDPQLLHHLCWGPLRMFNEHGMETALACW
EWLLAGKDGVEVPFMREMAGAWHMTVEQKFGLFSAEIKEADPLAASEASQPKPCPPEVTP
HYIWIDFLVQRFEIAKYCSSDQVEIFSSLLQRSMSLNIGGAKGSMNRHVAAIGPRFKLLT
LGLSLLHADVVPNATIRNVLREKIYSTAFDYFSCPPKFPTQGEKRLREDISIMIKFWTAM
FSDKKYLTASQLVPPDNQDTRSNLDITVGSRQQATQGWINTYPLSSGMSTISKKSGMSKK
TNRGSQLHKYYMKRRTLLLSLLATEIERLITWYNPLSAPELELDQAGENSVANWRSKYIS
LSEKQWKDNVNLAWSISPYLAVQLPARFKNTEAIGNEVTRLVRLDPGAVSDVPEAIKFLV
TWHTIDADAPELSHVLCWAPTDPPTGLSYFSSMYPPHPLTAQYGVKVLRSFPPDAILFYI
PQIVQALRYDKMGYVREYILWAASKSQLLAHQFIWNMKTNIYLDEEGHQKDPDIGDLLDQ
LVEEITGSLSGPAKDFYQREFDFFNKITNVSAIIKPYPKGDERKKACLSALSEVKVQPGC
YLPSNPEAIVLDIDYKSGTPMQSAAKAPYLAKFKVKRCGVSELEKEGLRCRSDSEDECST
QEADGQKISWQAAIFKVGDDCRQDMLALQIIDLFKNIFQLVGLDLFVFPYRVVATAPGCG
VIECIPDCTSRDQLGRQTDFGMYDYFTRQYGDESTLAFQQARYNFIRSMAAYSLLLFLLQ
IKDRHNGNIMLDKKGHIIHIDFGFMFESSPGGNLGWEPDIKLTDEMVMIMGGKMEATPFK
WFMEMCVRGYLAVRPYMDAVVSLVTLMLDTGLPCFRGQTIKLLKHRFSPNMTEREAANFI
MKVIQSCFLSNRSRTYDMIQYYQNDIPY

Ligands and cofactors

IDNameFormulaCopies
E4S5-{2-amino-1-[4-(morpholin-4-yl)phenyl]-1H-benzimidazol-6-yl}-N-(2-fluorophenyl…C29 H27 F N6 O4 S2

Primary citation

Architecture of the human PI4KIII alpha lipid kinase complex. Lees, J.A., Zhang, Y., Oh, M.S. et al. Proc Natl Acad Sci U S A (2017) 114:13720-13725. DOI 10.1073/pnas.1718471115 · PubMed

Other PDB entries of the same protein (UniProt P42356 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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