7JPO: Origin recognition complex subunit 1

ORC-O1AAA: Human Origin Recognition Complex (ORC) with dynamic/unresolved ORC2 WH. Determined by electron microscopy at 3.2 Å resolution. Released 2 Sept 2020.

Method: Electron microscopy
Resolution: 3.2 Å
Organism: Homo sapiens
Chains: 5
Atoms: 16,087
Mol. weight: 295.19 kDa
Ligands: MG, ATP
Released: 2 Sept 2020

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

Secondary structure: helices and β-sheets

7JPO contains 111 α-helices and 40 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, 11 β-strands

Element	Residues	Length	Sheet
α-helix	488-495	8
α-helix	508-522	15
β-strand	528-533	6	1
α-helix	540-556	17
β-strand	565-569	5	1
α-helix	578-587	10
α-helix	594-604	11
β-strand	616-620	5	1
α-helix	622-625	4
α-helix	631-638	8
β-strand	648-652	5	1
α-helix	658-660	3
β-strand	674-677	4	1
α-helix	678-681	4
α-helix	683-693	11
β-strand	700	1	2
α-helix	702-715	14
α-helix	719-735	17
β-strand	746	1	2
α-helix	748-759	12
α-helix	763-768	6
α-helix	772-788	17
β-strand	793-794	2	3
α-helix	795-809	15
α-helix	811-815	5
α-helix	816-828	13
β-strand	832-833	2	4
β-strand	844-845	2	3
β-strand	846-847	2	4
α-helix	851-858	8

Chain B: 10 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	240-247	8
α-helix	271-275	5
α-helix	284-288	5
α-helix	298-306	9
β-strand	310-314	5	5
α-helix	320-329	10
β-strand	335-339	5	5
α-helix	348-354	7
α-helix	355-359	5
α-helix	369-382	14
β-strand	388-392	5	5
α-helix	403-413	11
β-strand	418-424	7	5
α-helix	429-432	4
β-strand	443-447	5	5

Chain C: 34 helices, 8 β-strands

Element	Residues	Length	Sheet
β-strand	6	1	6
β-strand	8	1	6
β-strand	10-13	4	5
α-helix	22-25	4
α-helix	39-65	27
α-helix	67-86	20
α-helix	98-99	2
β-strand	100-106	7	7
α-helix	111-113	3
α-helix	114-128	15
β-strand	133-136	4	7
α-helix	138-140	3
α-helix	144-157	14
α-helix	181-192	12
β-strand	215-219	5	7
α-helix	227-238	12
β-strand	246-252	7	7
α-helix	258-262	5
α-helix	265-268	4
β-strand	271-277	7	7
α-helix	281-292	12
α-helix	304-312	9
α-helix	313-317	5
α-helix	321-338	18
α-helix	342-344	3
α-helix	348-356	9
α-helix	360-367	8
α-helix	370-377	8
α-helix	381-389	9
α-helix	391-425	35
α-helix	435-443	9
α-helix	452-460	9
α-helix	465-481	17
α-helix	488-499	12
α-helix	548-565	18
α-helix	570-572	3
α-helix	576-578	3
α-helix	584-591	8
α-helix	595-604	10
α-helix	628-636	9
α-helix	645-659	15
α-helix	676-689	14

Chain D: 23 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	18-28	11
α-helix	41-56	16
β-strand	61-66	6	8
α-helix	73-86	14
α-helix	88-92	5
β-strand	95-100	6	8
α-helix	107-117	11
α-helix	121-124	4
α-helix	132-140	9
β-strand	154-159	6	8
α-helix	161-163	3
α-helix	171-182	12
β-strand	187-193	7	8
α-helix	198-200	3
α-helix	204-209	6
β-strand	214-216	3	8
α-helix	223-233	11
α-helix	243-257	15
α-helix	260-272	13
α-helix	276-287	12
α-helix	299-309	11
α-helix	313-319	7
α-helix	323-338	16
β-strand	344	1	9
α-helix	346-355	10
α-helix	356-360	5
α-helix	369-381	13
β-strand	385-387	3	9
β-strand	402-404	3	9
α-helix	408-416	9
α-helix	423-430	8

Chain E: 25 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	13-22	10
β-strand	32-36	5	10
α-helix	43-53	11
β-strand	58-62	5	10
α-helix	69-84	16
α-helix	99-110	12
β-strand	120-125	6	10
α-helix	127-129	3
α-helix	137-142	6
α-helix	144-148	5
β-strand	152-158	7	10
α-helix	162-164	3
α-helix	172-174	3
β-strand	175-178	4	10
α-helix	180-182	3
α-helix	184-191	8
α-helix	201-215	15
α-helix	222-236	15
α-helix	238-242	5
α-helix	250-267	18
α-helix	275-283	9
α-helix	286-287	2
α-helix	304-317	14
α-helix	321-323	3
α-helix	324	1
α-helix	325-329	5
β-strand	357	1	11
α-helix	359-369	11
α-helix	378-389	12
β-strand	393-395	3	11
β-strand	407-409	3	11
α-helix	413-422	10
α-helix	428-431	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Origin recognition complex subunit 1	A	protein	392	Homo sapiens	Q13415 (AlphaFold model)
Origin recognition complex subunit 2	B	protein	577	Homo sapiens	Q13416 (AlphaFold model)
Origin recognition complex subunit 3	C	protein	712	Homo sapiens	Q9UBD5 (AlphaFold model)
Origin recognition complex subunit 4	D	protein	436	Homo sapiens	O43929 (AlphaFold model)
Origin recognition complex subunit 5	E	protein	435	Homo sapiens	O43913

Sequence of entity 1 (A), FASTA

>7JPO_1 Origin recognition complex subunit 1 (chains A)
MAPQIRSRSLAAQEPASVLEEARLRLHVSAVPESLPCREQEFQDIYNFVESKLLDHTGGC
MYISGVPGTGKTATVHEVIRCLQQAAQANDVPPFQYIEVNGMKLTEPHQVYVQILQKLTG
QKATANHAAELLAKQFCTRGSPQETTVLLVDELDLLWTHKQDIMYNLFDWPTHKEARLVV
LAIANTMDLPERIMMNRVSSRLGLTRMCFQPYTYSQLQQILRSRLKHLKAFEDDAIQLVA
RKVAALSGDARRCLDICRRATEICEFSQQKPDSPGLVTIAHSMEAVDEMFSSSYITAIKN
SSVLEQSFLRAILAEFRRSGLEEATFQQIYSQHVALCRMEGLPYPTMSETMAVCSHLGSC
RLLLVEPSRNDLLLRVRLNVSQDDVLYALKDE

Sequence of entity 2 (B), FASTA

>7JPO_2 Origin recognition complex subunit 2 (chains B)
MSKPELKEDKMLEVHFVGDDDVLNHILDREGGAKLKKERAQLLVNPKKIIKKPEYDLEED
DQEVLKDQNYVEIMGRDVQESLKNGSATGGGNKVYSFQNRKHSEKMAKLASELAKTPQKS
VSFSLKNDPEITINVPQSSKGHSASDKVQPKNNDKSEFLSTAPRSLRKRLIVPRSHSDSE
SEYSASNSEDDEGVAQEHEEDTNAVIFSQKIQAQNRVVSAPVGKETPSKRMKRDKTSDLV
EEYFEAHSSSKVLTSDRTLQKLKRAKLDQQTLRNLLSKVSPSFSAELKQLNQQYEKLFHK
WMLQLHLGFNIVLYGLGSKRDLLERFRTTMLQDSIHVVINGFFPGISVKSVLNSITEEVL
DHMGTFRSILDQLDWIVNKFKEDSSLELFLLIHNLDSQMLRGEKSQQIIGQLSSLHNIYL
IASIDHLNAPLMWDHAKQSLFNWLWYETTTYSPYTEETSYENSLLVKQSGSLPLSSLTHV
LRSLTPNARGIFRLLIKYQLDNQDNPSYIGLSFQDFYQQCREAFLVNSDLTLRAQLTEFR
DHKLIRTKKGTDGVEYLLIPVDNGTLTDFLEKEEEEA

Sequence of entity 3 (C), FASTA

>7JPO_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

>7JPO_4 Origin recognition complex subunit 4 (chains D)
MSSRKSKSNSLIHTECLSQVQRILRERFCRQSPHSNLFGVQVQYKHLSELLKRTALHGES
NSVLIIGPRGSGKTMLINHALKELMEIEEVSENVLQVHLNGLLQINDKIALKEITRQLNL
ENVVGDKVFGSFAENLSFLLEALKKGDRTSSCPVIFILDEFDLFAHHKNQTLLYNLFDIS
QSAQTPIAVIGLTCRLDILELLEKRVKSRFSHRQIHLMNSFGFPQYVKIFKEQLSLPAEF
PDKVFAEKWNENVQYLSEDRSVQEVLQKHFNISKNLRSLHMLLMLALNRVTASHPFMTAV
DLMEASQLCSMDSKANIVHGLSVLEICLIIAMKHLNDIYEEEPFNFQMVYNEFQKFVQRK
AHSVYNFEKPVVMKAFEHLQQLELIKPMERTSGNSQREYQLMKLLLDNTQIMNALQKYPN
CPTDVRQWATSSLSWL

Sequence of entity 5 (E), FASTA

>7JPO_5 Origin recognition complex subunit 5 (chains E)
MPHLENVVLCRESQVSILQSLFGERHHFSFPSIFIYGHTASGKTYVTQTLLKTLELPHVF
VNCVECFTLRLLLEQILNKLNHLSSSEDGCSTEITCETFNDFVRLFKQVTTAENLKDQTV
YIVLDKAEYLRDMEANLLPGFLRLQELADRNVTVLFLSEIVWEKFRPNTGCFEPFVLYFP
DYSIGNLQKILSHDHPPEYSADFYAAYINILLGVFYTVCRDLKELRHLAVLNFPKYCEPV
VKGEASERDTRKLWRNIEPHLKKAMQTVYLREISSSQWEKLQKDDTDPGQLKGLSAHTHV
ELPYYSKFILIAAYLASYNPARTDKRFFLKHHGKIKKTNFLKKHEKTSNSLLGPKPFPLD
RLLAILYSIVDSRVAPTANIFSQITSLVTLQLLTLVGHDDQLDGPKYKCTVSLDFIRAIA
RTVNFDIIKYLYDFL

Ligands and cofactors

ID	Name	Formula	Copies
MG	Magnesium ion	Mg	3
ATP	Adenosine-5'-triphosphate	C10 H16 N5 O13 P3	3

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:

6P3W 2.54 Å, Crystal structure of the Cyclin A-CDK2-ORC1 complex
11RL 2.8 Å, CryoEM structure of the human origin recognition complex with DNA and CDC6 protein
5UJ7 3.39 Å, Structure of the active form of human Origin Recognition Complex ATPase motor module,…
8S0D 3.6 Å, H. sapiens MCM bound to double stranded DNA and ORC1-6
7JPP 3.7 Å, ORC-O2WH: Human Origin Recognition Complex (ORC) with dynamic/unresolved ORC1 AAA+ domain
8S0E 3.8 Å, H. sapiens OCCM bound to double stranded DNA
7JPR 4.0 Å, ORC-OPEN: Human Origin Recognition Complex (ORC) in an open conformation
8S0C 4.0 Å, H. sapiens ORC1-5 bound to double stranded DNA as part of the MCM-ORC complex
8S0F 4.1 Å, H. sapiens OC1M bound to double stranded DNA
7JPS 4.4 Å, ORC-DNA: Human Origin Recognition Complex (ORC) with DNA bound in the core
7CTF 4.8 Å, Human origin recognition complex 1-5 State II
7CTG 5.0 Å, Human Origin Recognition Complex, ORC1-5 State I

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