7JPS: Origin recognition complex subunit 1

ORC-DNA: Human Origin Recognition Complex (ORC) with DNA bound in the core. Determined by electron microscopy at 4.4 Å resolution. Released 9 Sept 2020.

Method
Electron microscopy
Resolution
4.4 Å
Organisms
Homo sapiens, Spodoptera frugiperda
Chains
7
Atoms
16,352
Mol. weight
303.17 kDa
Ligands
ATP, MG
Released
9 Sept 2020

Explore 7JPS in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7JPS contains 112 α-helices and 42 β-strands across 5 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: 19 helices, 14 β-strands

ElementResiduesLengthSheet
α-helix488-4958
α-helix5041
α-helix508-52215
β-strand528-52921
β-strand531-53332
α-helix540-55617
β-strand56511
β-strand568-56921
α-helix578-58710
α-helix594-60411
β-strand616-62051
α-helix622-6254
α-helix631-6388
β-strand648-65141
β-strand652-65322
β-strand675-67732
α-helix679-6813
α-helix683-69311
β-strand70013
α-helix702-71514
α-helix719-73517
β-strand74613
α-helix748-75811
α-helix763-7686
α-helix772-78817
β-strand79314
α-helix795-80915
α-helix811-8155
α-helix816-82813
β-strand832-83325
β-strand84514
β-strand846-84725
α-helix851-8588
Chain B: 11 helices, 5 β-strands
ElementResiduesLengthSheet
α-helix272-2754
α-helix279-2813
α-helix284-2874
α-helix290-30516
β-strand310-31456
α-helix320-32910
β-strand335-33956
α-helix348-3547
α-helix355-3595
α-helix369-38214
β-strand388-39256
α-helix403-41311
β-strand418-42476
α-helix429-4324
β-strand443-44756
α-helix456-4627
Chain C: 36 helices, 6 β-strands
ElementResiduesLengthSheet
β-strand1216
α-helix24-252
α-helix37-6428
α-helix68-8619
α-helix98-992
β-strand100-10677
α-helix111-1133
α-helix114-12815
β-strand132-13657
α-helix138-1403
α-helix144-15714
α-helix181-19212
α-helix213-2142
β-strand215-21957
α-helix227-23913
β-strand246-25277
α-helix258-2625
α-helix265-2684
β-strand271-27667
α-helix282-2909
α-helix304-3129
α-helix313-3175
α-helix321-33818
α-helix342-3443
α-helix348-3569
α-helix360-3678
α-helix370-3789
α-helix381-3899
α-helix391-42535
α-helix435-44410
α-helix452-46110
α-helix465-48117
α-helix488-50013
α-helix548-56619
α-helix570-5723
α-helix576-5794
α-helix584-5918
α-helix595-60410
α-helix606-6083
α-helix628-6369
α-helix645-65915
α-helix675-68915
Chain D: 23 helices, 8 β-strands
ElementResiduesLengthSheet
α-helix18-2811
α-helix41-5616
β-strand61-6448
α-helix73-8513
α-helix88-925
β-strand95-10068
α-helix107-11711
α-helix121-1244
α-helix132-1409
β-strand154-15968
α-helix161-1666
α-helix171-18111
β-strand187-19158
α-helix198-2003
α-helix204-2085
β-strand213-21428
α-helix223-23311
α-helix243-25715
α-helix260-27213
α-helix276-28712
α-helix299-30911
α-helix313-3197
α-helix323-33816
β-strand34419
α-helix346-35510
α-helix356-3605
α-helix369-38214
β-strand385-38739
β-strand402-40439
α-helix408-4169
α-helix423-4308
Chain E: 23 helices, 9 β-strands
ElementResiduesLengthSheet
α-helix13-2210
β-strand32-36510
α-helix44-5310
β-strand58-62510
α-helix69-8416
α-helix99-11012
β-strand120-125610
α-helix127-1293
α-helix130-1334
α-helix137-1426
α-helix144-1485
β-strand152-158710
α-helix162-1654
α-helix172-1743
β-strand175-178410
α-helix179-1824
α-helix184-1918
α-helix201-21515
α-helix222-23615
α-helix238-2425
α-helix250-26415
α-helix275-2839
α-helix305-31713
α-helix324-3285
β-strand357111
α-helix359-36911
α-helix378-38912
β-strand393-394212
β-strand407111
β-strand408-409212
α-helix413-42311
α-helix427-4315

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Origin recognition complex subunit 1Aprotein392Homo sapiensQ13415 (AlphaFold model)
Origin recognition complex subunit 2Bprotein577Homo sapiensQ13416 (AlphaFold model)
Origin recognition complex subunit 3Cprotein712Homo sapiensQ9UBD5 (AlphaFold model)
Origin recognition complex subunit 4Dprotein436Homo sapiensO43929 (AlphaFold model)
Origin recognition complex subunit 5Eprotein435Homo sapiensO43913
DNA (5'-d(*ap*tp*ap*tp*ap*tp*ap*tp*ap*tp*ap*ap*t)-3')FDNA13Spodoptera frugiperda
DNA (5'-d(*ap*tp*tp*ap*tp*ap*tp*ap*tp*ap*tp*ap*t)-3')GDNA13Spodoptera frugiperda
Sequence of entity 1 (A), FASTA
>7JPS_1 Origin recognition complex subunit 1 (chains A)
MAPQIRSRSLAAQEPASVLEEARLRLHVSAVPESLPCREQEFQDIYNFVESKLLDHTGGC
MYISGVPGTGKTATVHEVIRCLQQAAQANDVPPFQYIEVNGMKLTEPHQVYVQILQKLTG
QKATANHAAELLAKQFCTRGSPQETTVLLVDELDLLWTHKQDIMYNLFDWPTHKEARLVV
LAIANTMDLPERIMMNRVSSRLGLTRMCFQPYTYSQLQQILRSRLKHLKAFEDDAIQLVA
RKVAALSGDARRCLDICRRATEICEFSQQKPDSPGLVTIAHSMEAVDEMFSSSYITAIKN
SSVLEQSFLRAILAEFRRSGLEEATFQQIYSQHVALCRMEGLPYPTMSETMAVCSHLGSC
RLLLVEPSRNDLLLRVRLNVSQDDVLYALKDE
Sequence of entity 2 (B), FASTA
>7JPS_2 Origin recognition complex subunit 2 (chains B)
MSKPELKEDKMLEVHFVGDDDVLNHILDREGGAKLKKERAQLLVNPKKIIKKPEYDLEED
DQEVLKDQNYVEIMGRDVQESLKNGSATGGGNKVYSFQNRKHSEKMAKLASELAKTPQKS
VSFSLKNDPEITINVPQSSKGHSASDKVQPKNNDKSEFLSTAPRSLRKRLIVPRSHSDSE
SEYSASNSEDDEGVAQEHEEDTNAVIFSQKIQAQNRVVSAPVGKETPSKRMKRDKTSDLV
EEYFEAHSSSKVLTSDRTLQKLKRAKLDQQTLRNLLSKVSPSFSAELKQLNQQYEKLFHK
WMLQLHLGFNIVLYGLGSKRDLLERFRTTMLQDSIHVVINGFFPGISVKSVLNSITEEVL
DHMGTFRSILDQLDWIVNKFKEDSSLELFLLIHNLDSQMLRGEKSQQIIGQLSSLHNIYL
IASIDHLNAPLMWDHAKQSLFNWLWYETTTYSPYTEETSYENSLLVKQSGSLPLSSLTHV
LRSLTPNARGIFRLLIKYQLDNQDNPSYIGLSFQDFYQQCREAFLVNSDLTLRAQLTEFR
DHKLIRTKKGTDGVEYLLIPVDNGTLTDFLEKEEEEA
Sequence of entity 3 (C), FASTA
>7JPS_3 Origin recognition complex subunit 3 (chains C)
MATSSMSKGCFVFKPNSKKRKISLPIEDYFNKGKNEPEDSKLRFETYQLIWQQMKSENER
LQEELNKNLFDNLIEFLQKSHSGFQKNSRDLGGQIKLREIPTAALVLGVNVTDHDLTFGS
LTEALQNNVTPYVVSLQAKDCPDMKHFLQKLISQLMDCCVDIKSKEEESVHVTQRKTHYS
MDSLSSWYMTVTQKTDPKMLSKKRTTSSQWQSPPVVVILKDMESFATKVLQDFIIISSQH
LHEFPLILIFGIATSPIIIHRLLPHAVSSLLCIELFQSLSCKEHLTTVLDKLLLTTQFPF
KINEKVLQVLTNIFLYHDFSVQNFIKGLQLSLLEHFYSQPLSVLCCNLPEAKRRINFLSN
NQCENIRRLPSFRRYVEKQASEKQVALLTNERYLKEETQLLLENLHVYHMNYFLVLRCLH
KFTSSLPKYPLGRQIRELYCTCLEKNIWDSEEYASVLQLLRMLAKDELMTILEKCFKVFK
SYCENHLGSTAKRIEEFLAQFQSLDAETKEEEDASGSQPKGLQKTDLYHLQKSLLEMKEL
RRSKKQTKFEVLRENVVNFIDCLVREYLLPPETQPLHEVVYFSAAHALREHLNAAPRIAL
HTALNNPYYYLKNEALKSEEGCIPNIAPDICIAYKLHLECSRLINLVDWSEAFATVVTAA
EKMDANSATSEEMNEIIHARFIRAVSELELLGFIKPTKQKTDHVARLTWGGC
Sequence of entity 4 (D), FASTA
>7JPS_4 Origin recognition complex subunit 4 (chains D)
MSSRKSKSNSLIHTECLSQVQRILRERFCRQSPHSNLFGVQVQYKHLSELLKRTALHGES
NSVLIIGPRGSGKTMLINHALKELMEIEEVSENVLQVHLNGLLQINDKIALKEITRQLNL
ENVVGDKVFGSFAENLSFLLEALKKGDRTSSCPVIFILDEFDLFAHHKNQTLLYNLFDIS
QSAQTPIAVIGLTCRLDILELLEKRVKSRFSHRQIHLMNSFGFPQYVKIFKEQLSLPAEF
PDKVFAEKWNENVQYLSEDRSVQEVLQKHFNISKNLRSLHMLLMLALNRVTASHPFMTAV
DLMEASQLCSMDSKANIVHGLSVLEICLIIAMKHLNDIYEEEPFNFQMVYNEFQKFVQRK
AHSVYNFEKPVVMKAFEHLQQLELIKPMERTSGNSQREYQLMKLLLDNTQIMNALQKYPN
CPTDVRQWATSSLSWL
Sequence of entity 5 (E), FASTA
>7JPS_5 Origin recognition complex subunit 5 (chains E)
MPHLENVVLCRESQVSILQSLFGERHHFSFPSIFIYGHTASGKTYVTQTLLKTLELPHVF
VNCVECFTLRLLLEQILNKLNHLSSSEDGCSTEITCETFNDFVRLFKQVTTAENLKDQTV
YIVLDKAEYLRDMEANLLPGFLRLQELADRNVTVLFLSEIVWEKFRPNTGCFEPFVLYFP
DYSIGNLQKILSHDHPPEYSADFYAAYINILLGVFYTVCRDLKELRHLAVLNFPKYCEPV
VKGEASERDTRKLWRNIEPHLKKAMQTVYLREISSSQWEKLQKDDTDPGQLKGLSAHTHV
ELPYYSKFILIAAYLASYNPARTDKRFFLKHHGKIKKTNFLKKHEKTSNHLLGPKPFPLD
RLLAILYSIVDSRVAPTANIFSQITSLVTLQLLTLVGHDDQLDGPKYKCTVSLDFIRAIA
RTVNFDIIKYLYDFL
Sequence of entity 6 (F), FASTA
>7JPS_6 DNA (5'-D(*AP*TP*AP*TP*AP*TP*AP*TP*AP*TP*AP*AP*T)-3') (chains F)
ATATATATATAAT
Sequence of entity 7 (G), FASTA
>7JPS_7 DNA (5'-D(*AP*TP*TP*AP*TP*AP*TP*AP*TP*AP*TP*AP*T)-3') (chains G)
ATTATATATATAT

Ligands and cofactors

IDNameFormulaCopies
ATPAdenosine-5'-triphosphateC10 H16 N5 O13 P33
MGMagnesium ionMg3

Water and common crystallization additives (K) are not listed.

Primary citation

The dynamic nature of the human Origin Recognition Complex revealed through five cryoEM structures. Jaremko, M.J., On, K.F., Thomas, D.R. et al. Elife (2020) 9. DOI 10.7554/eLife.58622 · PubMed

Other PDB entries of the same protein (UniProt Q13415 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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