8RIF: MCM double hexamer loaded onto dsDNA

Name: PDB 8RIF: Cryo-EM structure of the MCM double hexamer loaded onto dsDNA.
Published: 2025-01-01
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: replication

Cryo-EM structure of the MCM double hexamer loaded onto dsDNA. Determined by electron microscopy at 2.79 Å resolution. Released 1 Jan 2025.

Method: Electron microscopy
Resolution: 2.79 Å
Organism: Saccharomyces cerevisiae
Chains: 14
Atoms: 64,125
Mol. weight: 1257.96 kDa
Ligands: ATP, MG, ZN, ADP
Released: 1 Jan 2025

Explore 8RIF in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8RIF contains 366 α-helices and 356 β-strands across 12 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.

Chains 2 and A: 27 helices, 25 β-strands

Element	Residues	Length	Sheet
α-helix	183-186	4
α-helix	194-199	6
α-helix	201-216	16
α-helix	226-237	12
β-strand	241-244	4	1
α-helix	246-252	7
α-helix	254-262	9
α-helix	264-282	19
α-helix	286-289	4
β-strand	294-297	4	1
β-strand	304	1	2
α-helix	311-313	3
β-strand	317-327	11	2
β-strand	331-341	11	2
β-strand	346-352	7	2
β-strand	373-375	3	2
β-strand	381-391	11	2
α-helix	394-396	3
α-helix	398	1
β-strand	405-411	7	2
α-helix	412-414	3
β-strand	423-433	11	2
β-strand	446	1	3
β-strand	448-458	11	2
α-helix	478-488	11
α-helix	493-500	8
α-helix	509-520	12
β-strand	525-526	2	4
β-strand	532-533	2	4
β-strand	539-543	5	5
α-helix	549-559	11
β-strand	563-567	5	5
β-strand	579-582	4	6
β-strand	589-592	4	6
α-helix	595-598	4
β-strand	603-607	5	5
α-helix	614-626	13
β-strand	628-633	6	7
β-strand	636-641	6	7
β-strand	645-650	6	5
β-strand	654	1	8
β-strand	656	1	8
α-helix	663-665	3
α-helix	671-674	4
β-strand	679-683	5	5
α-helix	689-705	17
α-helix	760-773	14
α-helix	780-783	4
α-helix	784-800	17
α-helix	807-823	17
α-helix	831-847	17
α-helix	851-860	10

Chains 3 and B: 26 helices, 27 β-strands

Element	Residues	Length	Sheet
α-helix	19-34	16
α-helix	39-51	13
α-helix	91-93	3
β-strand	95-99	5	9
α-helix	100-106	7
α-helix	108-116	9
α-helix	118-136	19
β-strand	154-158	5	9
β-strand	165-166	2	10
β-strand	179-189	11	10
β-strand	193-203	11	10
β-strand	208-213	6	10
β-strand	234	1	11
β-strand	240	1	11
β-strand	241-243	3	10
β-strand	249-259	11	10
α-helix	266	1
β-strand	273-279	7	10
α-helix	280-282	3
β-strand	290-301	12	10
β-strand	318-330	13	10
α-helix	341-343	3
α-helix	344-355	12
α-helix	359-365	7
α-helix	375-386	12
β-strand	391-392	2	12
β-strand	398-399	2	12
β-strand	405-408	4	13
α-helix	415-425	11
β-strand	429-433	5	13
α-helix	434-436	3
α-helix	439-441	3
β-strand	444-448	5	14
β-strand	455-459	5	14
α-helix	461-464	4
β-strand	468-473	6	13
α-helix	475-477	3
α-helix	480-491	12
β-strand	494-498	5	15
β-strand	503-507	5	15
β-strand	510-516	7	13
α-helix	529-532	4
α-helix	537-541	5
β-strand	545-548	4	13
α-helix	556-568	13
α-helix	581-582	2
β-strand	589-590	2	10
α-helix	653-666	14
β-strand	670	1	16
α-helix	675-687	13
α-helix	699-716	18
β-strand	720	1	16
α-helix	723-737	15

Chains 4 and C: 33 helices, 33 β-strands

Element	Residues	Length	Sheet
α-helix	187-199	13
α-helix	226-236	11
β-strand	240-243	4	17
α-helix	246-249	4
α-helix	255-261	7
α-helix	265-282	18
β-strand	302-305	4	17
α-helix	314-316	3
α-helix	319-321	3
β-strand	325-335	11	18
α-helix	336-338	3
β-strand	339-349	11	18
β-strand	355-359	5	18
β-strand	361	1	19
β-strand	364-367	4	19
β-strand	370	1	20
β-strand	379	1	20
β-strand	382-384	3	18
α-helix	386-388	3
β-strand	390-401	12	18
β-strand	414-420	7	18
β-strand	432-442	11	18
β-strand	445	1	21
β-strand	453-454	2	21
β-strand	456	1	22
β-strand	458-467	10	18
α-helix	474-476	3
α-helix	478-480	3
α-helix	482-491	10
α-helix	499-500	2
α-helix	503-513	11
α-helix	518-526	9
α-helix	534-545	12
β-strand	550-551	2	23
β-strand	557-558	2	23
β-strand	564-568	5	24
α-helix	574-584	11
β-strand	588-591	4	24
α-helix	593-595	3
β-strand	596	1	25
α-helix	598-602	5
β-strand	603-607	5	26
β-strand	614-618	5	26
α-helix	620-623	4
β-strand	627-632	6	24
α-helix	634-636	3
α-helix	639-643	5
α-helix	645-650	6
β-strand	653-658	6	27
β-strand	661-666	6	27
β-strand	669-675	7	24
α-helix	676-677	2
α-helix	688-690	3
α-helix	696-699	4
β-strand	704-708	5	24
α-helix	714-726	13
α-helix	744-756	13
β-strand	761-762	2	28
α-helix	764-779	16
α-helix	791-793	3
α-helix	795-810	16
β-strand	816-817	2	28
α-helix	819-833	15
β-strand	838	1	29
β-strand	845	1	29
α-helix	847-849	3

Chains 5 and D: 30 helices, 28 β-strands

Element	Residues	Length	Sheet
β-strand	8-12	5	30
α-helix	18-20	3
α-helix	24-37	14
β-strand	40	1	31
β-strand	43	1	31
α-helix	45-55	11
β-strand	60-64	5	32
α-helix	65-67	3
α-helix	73-81	9
α-helix	83-104	22
α-helix	134-135	2
β-strand	136-140	5	32
β-strand	156	1	33
β-strand	159-169	11	33
β-strand	173-183	11	33
β-strand	189-193	5	33
α-helix	222-225	4
β-strand	241-243	3	33
α-helix	245-247	3
β-strand	249-259	11	33
α-helix	270-272	3
β-strand	273-279	7	33
α-helix	280-282	3
β-strand	291-301	11	33
β-strand	323	1	2
β-strand	325-335	11	33
α-helix	351-361	11
α-helix	367-373	7
α-helix	382-391	10
β-strand	398-399	2	34
β-strand	405-406	2	34
β-strand	411-416	6	35
α-helix	422-431	10
β-strand	436-440	5	35
β-strand	443	1	35
β-strand	446	1	7
β-strand	452-455	4	36
β-strand	462-466	5	36
α-helix	468-471	4
β-strand	476-480	5	35
α-helix	487-499	13
β-strand	501-505	5	37
β-strand	510-514	5	37
β-strand	518-523	6	35
α-helix	524-525	2
α-helix	537-539	3
α-helix	544-549	6
β-strand	552-556	5	35
α-helix	562-577	16
α-helix	579-581	3
α-helix	587-590	4
α-helix	596-607	12
α-helix	616-639	24
α-helix	643-644	2
α-helix	650-665	16
α-helix	674-687	14
α-helix	688-693	6
α-helix	695-697	3

Chains 6 and E: 31 helices, 34 β-strands

Element	Residues	Length	Sheet
α-helix	100-103	4
α-helix	106-120	15
β-strand	124	1	38
β-strand	133	1	38
α-helix	135-146	12
β-strand	150-154	5	39
α-helix	155-160	6
α-helix	166-172	7
α-helix	174-192	19
α-helix	194-197	4
β-strand	198	1	40
α-helix	259	1
β-strand	260	1	40
α-helix	261-262	2
β-strand	264-268	5	39
β-strand	274	1	3
α-helix	276-278	3
α-helix	281-283	3
β-strand	287-297	11	3
β-strand	301-311	11	3
β-strand	317-322	6	3
β-strand	344-346	3	3
β-strand	352-362	11	3
α-helix	365-367	3
β-strand	376-382	7	3
α-helix	383-385	3
β-strand	393-405	13	3
α-helix	407-409	3
β-strand	418-421	4	19
β-strand	428	1	41
β-strand	446-447	2	19
β-strand	450-461	12	3
α-helix	513-521	9
α-helix	525-531	7
α-helix	541-552	12
β-strand	557-558	2	42
α-helix	563	1
β-strand	564-565	2	42
α-helix	566	1
β-strand	571-574	4	43
α-helix	582-591	10
β-strand	595-599	5	43
β-strand	603	1	27
α-helix	605-608	4
β-strand	610-614	5	44
β-strand	621-625	5	44
β-strand	634-639	6	43
α-helix	641-643	3
α-helix	646-657	12
β-strand	660-665	6	45
β-strand	668-673	6	45
β-strand	676-682	7	43
β-strand	686	1	46
β-strand	688	1	46
α-helix	695-698	4
α-helix	703-707	5
β-strand	711-714	4	43
α-helix	721-737	17
α-helix	748-758	11
β-strand	764	1	47
α-helix	767-783	17
α-helix	797-814	18
β-strand	818	1	47
α-helix	821-834	14
α-helix	837-839	3

Chains 7 and F: 36 helices, 31 β-strands

Element	Residues	Length	Sheet
β-strand	7-8	2	10
α-helix	14-25	12
α-helix	62-71	10
β-strand	77-81	5	48
α-helix	82-94	13
α-helix	102-108	7
α-helix	110-123	14
α-helix	138-164	27
α-helix	180-188	9
α-helix	195-197	3
β-strand	201-205	5	48
α-helix	206-208	3
α-helix	209-214	6
α-helix	232-234	3
β-strand	238-248	11	22
β-strand	252-262	11	22
β-strand	267-272	6	22
β-strand	277-278	2	21
β-strand	283	1	49
α-helix	287-291	5
β-strand	297	1	49
β-strand	298-300	3	22
β-strand	306-316	11	22
α-helix	319-321	3
α-helix	323	1
β-strand	330-336	7	22
α-helix	337-339	3
β-strand	348-359	12	22
α-helix	364-366	3
β-strand	371	1	10
β-strand	372-383	12	22
α-helix	395-406	12
α-helix	410-415	6
α-helix	426-437	12
β-strand	442-445	4	50
β-strand	448-450	3	50
β-strand	456-460	5	51
α-helix	466-476	11
β-strand	480-484	5	51
α-helix	490-492	3
β-strand	495-499	5	52
β-strand	506-510	5	52
α-helix	512-515	4
β-strand	519-524	6	51
α-helix	526-528	3
α-helix	531-543	13
β-strand	545-550	6	25
β-strand	553-558	6	25
β-strand	561-567	7	51
α-helix	580-582	3
α-helix	588-591	4
β-strand	596-600	5	51
α-helix	606-621	16
α-helix	631-634	4
α-helix	635-646	12
β-strand	651	1	53
α-helix	654-676	23
α-helix	686-703	18
β-strand	707	1	53
α-helix	710-722	13
α-helix	725-728	4
α-helix	741-752	12
β-strand	759-761	3	54
α-helix	762-772	11
α-helix	776-788	13
β-strand	792-795	4	54
β-strand	800-803	4	54

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
DNA replication licensing factor MCM2	2, A	protein	868	Saccharomyces cerevisiae	P29469 (AlphaFold model)
DNA replication licensing factor MCM3	3, B	protein	1006	Saccharomyces cerevisiae	P24279 (AlphaFold model)
DNA replication licensing factor MCM4	4, C	protein	933	Saccharomyces cerevisiae	P30665 (AlphaFold model)
Minichromosome maintenance protein 5	5, D	protein	775	Saccharomyces cerevisiae	P29496 (AlphaFold model)
DNA replication licensing factor MCM6	6, E	protein	1017	Saccharomyces cerevisiae	P53091
DNA replication licensing factor MCM7	7, F	protein	845	Saccharomyces cerevisiae	P38132
DNA (53-mer)	X	DNA	53	Saccharomyces cerevisiae
DNA (53-mer)	Y	DNA	53	Saccharomyces cerevisiae

Sequence of entity 1 (2, A), FASTA

>8RIF_1 DNA replication licensing factor MCM2 (chains 2, A)
MSDNRRRRREEDDSDSENELPPSSPQQHFRGGMNPVSSPIGSPDMINPEGDDNEVDDVPD
IDEVEEQMNEVDLMDDNMYEDYAADHNRDRYDPDQVDDREQQELSLSERRRIDAQLNERD
RLLRNVAYIDDEDEEQEGAAQLDEMGLPVQRRRRRRQYEDLENSDDDLLSDMDIDPLREE
LTLESLSNVKANSYSEWITQPNVSRTIARELKSFLLEYTDETGRSVYGARIRTLGEMNSE
SLEVNYRHLAESKAILALFLAKCPEEMLKIFDLVAMEATELHYPDYARIHSEIHVRISDF
PTIYSLRELRESNLSSLVRVTGVVTRRTGVFPQLKYVKFNCLKCGSILGPFFQDSNEEIR
ISFCTNCKSKGPFRVNGEKTVYRNYQRVTLQEAPGTVPPGRLPRHREVILLADLVDVSKP
GEEVEVTGIYKNNYDGNLNAKNGFPVFATIIEANSIKRREGNTANEGEEGLDVFSWTEEE
EREFRKISRDRGIIDKIISSMAPSIYGHRDIKTAVACSLFGGVPKNVNGKHSIRGDINVL
LLGDPGTAKSQILKYVEKTAHRAVFATGQGASAVGLTASVRKDPITKEWTLEGGALVLAD
KGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTTLQARCSIIAAANPNGGRYNST
LPLAQNVSLTEPILSRFDILCVVRDLVDEEADERLATFVVDSHVRSHPENDEDREGEELK
NNGESAIEQGEDEINEQLNARQRRLQRQRKKEEEISPIPQELLMKYIHYARTKIYPKLHQ
MDMDKVSRVYADLRRESISTGSFPITVRHLESILRIAESFAKMRLSEFVSSYDLDRAIKV
VVDSFVDAQKVSVRRQLRRSFAIYTLGH

Sequence of entity 2 (3, B), FASTA

>8RIF_2 DNA replication licensing factor MCM3 (chains 3, B)
MKRRWKKNFIAVSAANRFKKISSSGALENLYFQGEMEGSTGFDGDATTFFAPDAVFGDRV
RRFQEFLDTFTSYRDSVRSIQVYNSNNAANYNDDQDDADERDLLGDDDGDDLEKEKKAAS
STSLNILPHRIIISLDDLREFDRSFWSGILVEPAYFIPPAEKALTDLADSMDDVPHPNAS
AVSSRHPWKLSFKGSFGAHALSPRTLTAQHLNKLVSVEGIVTKTSLVRPKLIRSVHYAAK
TGRFHYRDYTDATTTLTTRIPTPAIYPTEDTEGNKLTTEYGYSTFIDHQRITVQEMPEMA
PAGQLPRSIDVILDDDLVDKTKPGDRVNVVGVFKSLGAGGMNQSNSNTLIGFKTLILGNT
VYPLHARSTGVAARQMLTDFDIRNINKLSKKKDIFDILSQSLAPSIYGHDHIKKAILLML
MGGVEKNLENGSHLRGDINILMVGDPSTAKSQLLRFVLNTASLAIATTGRGSSGVGLTAA
VTTDRETGERRLEAGAMVLADRGVVCIDEFDKMTDVDRVAIHEVMEQQTVTIAKAGIHTT
LNARCSVIAAANPVFGQYDVNRDPHQNIALPDSLLSRFDLLFVVTDDINEIRDRSISEHV
LRTHRYLPPGYLEGEPVRERLNLSLAVGEDADINPEEHSNSGAGVENEGEDDEDHVFEKF
NPLLQAGAKLAKNKGNYNGTEIPKLVTIPFLRKYVQYAKERVIPQLTQEAINVIVKNYTD
LRNDDNTKKSPITARTLETLIRLATAHAKVRLSKTVNKVDAKVAANLLRFALLGEDIGND
IDEEESEYEEALSKRSPQKSPKKRQRVRQPASNSGSPIKSTPRRSTASSVNATPSSARRI
LRFQDDEQNAGEDDNDIMSPLPADEEAELQRRLQLGLRVSPRRREHLHAPEEGSSGPLTE
VGTPRLPNVSSAGQDDEQQQSVISFDNVEPGTISTGRLSLISGIIARLMQTEIFEEESYP
VASLFERINEELPEEEKFSAQEYLAGLKIMSDRNNLMVADDKVWRV

Sequence of entity 3 (4, C), FASTA

>8RIF_3 DNA replication licensing factor MCM4 (chains 4, C)
MSQQSSSPTKEDNNSSSPVVPNPDSVPPQLSSPALFYSSSSSQGDIYGRNNSQNLSQGEG
NIRAAIGSSPLNFPSSSQRQNSDVFQSQGRQGRIRSSASASGRSRYHSDLRSDRALPTSS
SSLGRNGQNRVHMRRNDIHTSDLSSPRRIVDFDTRSGVNTLDTSSSSAPPSEASEPLRII
WGTNVSIQECTTNFRNFLMSFKYKFRKILDEREEFINNTTDEELYYIKQLNEMRELGTSN
LNLDARNLLAYKQTEDLYHQLLNYPQEVISIMDQTIKDCMVSLIVDNNLDYDLDEIETKF
YKVRPYNVGSCKGMRELNPNDIDKLINLKGLVLRSTPVIPDMKVAFFKCNVCDHTMAVEI
DRGVIQEPARCERIDCNEPNSMSLIHNRCSFADKQVIKLQETPDFVPDGQTPHSISLCVY
DELVDSCRAGDRIEVTGTFRSIPIRANSRQRVLKSLYKTYVDVVHVKKVSDKRLDVDTST
IEQELMQNKVDHNEVEEVRQITDQDLAKIREVAAREDLYSLLARSIAPSIYELEDVKKGI
LLQLFGGTNKTFTKGGRYRGDINILLCGDPSTSKSQILQYVHKITPRGVYTSGKGSSAVG
LTAYITRDVDTKQLVLESGALVLSDGGVCCIDEFDKMSDSTRSVLHEVMEQQTISIAKAG
IITTLNARSSILASANPIGSRYNPNLPVTENIDLPPPLLSRFDLVYLVLDKVDEKNDREL
AKHLTNLYLEDKPEHISQDDVLPVEFLTMYISYAKEHIHPIITEAAKTELVRAYVGMRKM
GDDSRSDEKRITATTRQLESMIRLAEAHAKMKLKNVVELEDVQEAVRLIRSAIKDYATDP
KTGKIDMNLVQTGKSVIQRKLQEDLSREIMNVLKDQASDSMSFNELIKQINEHSQDRVES
SDIQEALSRLQQEDKVIVLGEGVRRSVRLNNRV

Sequence of entity 4 (5, D), FASTA

>8RIF_4 Minichromosome maintenance protein 5 (chains 5, D)
MSFDRPEIYSAPVLQGESPNDDDNTEIIKSFKNFILEFRLDSQFIYRDQLRNNILVKNYS
LTVNMEHLIGYNEDIYKKLSDEPSDIIPLFETAITQVAKRISILSRAQSANNNDKDPENT
SMDTDSLLLNSLPTFQLILNSNANQIPLRDLDSEHVSKIVRLSGIIISTSVLSSRATYLS
IMCRNCRHTTSITINNFNSITGNTVSLPRSCLSTIESESSMANESNIGDESTKKNCGPDP
YIIIHESSKFIDQQFLKLQEIPELVPVGEMPRNLTMTCDRYLTNKVIPGTRVTIVGIYSI
YNSKNGAGSGRSGGGNGGSGVAIRTPYIKILGIQSDVETSSIWNSVTMFTEEEEEEFLQL
SRNPKLYEILTNSIAPSIFGNEDIKKAIVCLLMGGSKKILPDGMRLRGDINVLLLGDPGT
AKSQLLKFVEKVSPIAVYTSGKGSSAAGLTASVQRDPMTREFYLEGGAMVLADGGVVCID
EFDKMRDEDRVAIHEAMEQQTISIAKAGITTVLNSRTSVLAAANPIYGRYDDLKSPGDNI
DFQTTILSRFDMIFIVKDDHNEERDISIANHVINIHTGNANAMQNQQEENGSEISIEKMK
RYITYCRLKCAPRLSPQAAEKLSSNFVTIRKQLLINELESTERSSIPITIRQLEAIIRIT
ESLAKLELSPIAQERHVDEAIRLFQASTMDAASQDPIGGLNQASGTSLSEIRRFEQELKR
RLPIGWSTSYQTLRREFVDTHRFSQLALDKALYALEKHETIQLRHQGQNIYRSGV

Sequence of entity 5 (6, E), FASTA

>8RIF_5 DNA replication licensing factor MCM6 (chains 6, E)
MSSPFPADTPSSNRPSNSSPPPSSIGAGFGSSSGLDSQIGSRLHFPSSSQPHVSNSQTGP
FVNDSTQFSSQRLQTDGSATNDMEGNEPARSFKSRALNHVKKVDDVTGEKVREAFEQFLE
DFSVQSTDTGEVEKVYRAQIEFMKIYDLNTIYIDYQHLSMRENGALAMAISEQYYRFLPF
LQKGLRRVVRKYAPELLNTSDSLKRSEGDEGQADEDEQQDDDMNGSSLPRDSGSSAAPGN
GTSAMATRSITTSTSPEQTERVFQISFFNLPTVHRIRDIRSEKIGSLLSISGTVTRTSEV
RPELYKASFTCDMCRAIVDNVEQSFKYTEPTFCPNPSCENRAFWTLNVTRSRFLDWQKVR
IQENANEIPTGSMPRTLDVILRGDSVERAKPGDRCKFTGVEIVVPDVTQLGLPGVKPSST
LDTRGISKTTEGLNSGVTGLRSLGVRDLTYKISFLACHVISIGSNIGASSPDANSNNRET
ELQMAANLQANNVYQDNERDQEVFLNSLSSDEINELKEMVKDEHIYDKLVRSIAPAVFGH
EAVKKGILLQMLGGVHKSTVEGIKLRGDINICVVGDPSTSKSQFLKYVVGFAPRSVYTSG
KASSAAGLTAAVVRDEEGGDYTIEAGALMLADNGICCIDEFDKMDISDQVAIHEAMEQQT
ISIAKAGIHATLNARTSILAAANPVGGRYNRKLSLRGNLNMTAPIMSRFDLFFVILDDCN
EKIDTELASHIVDLHMKRDEAIEPPFSAEQLRRYIKYARTFKPILTKEARSYLVEKYKEL
RKDDAQGFSRSSYRITVRQLESMIRLSEAIARANCVDEITPSFIAEAYDLLRQSIIRVDV
DDVEMDEEFDNIESQSHAASGNNDDNDDGTGSGVITSEPPADIEEGQSEATARPGTSEKK
KTTVTYDKYVSMMNMIVRKIAEVDREGAEELTAVDIVDWYLLQKENDLGSLAEYWEERRL
AFKVIKRLVKDRILMEIHGTRHNLRDLENEENENNKTVYVIHPNCEVLDQLEPQDSS

Sequence of entity 6 (7, F), FASTA

>8RIF_6 DNA replication licensing factor MCM7 (chains 7, F)
MSAALPSIQLPVDYNNLFNEITDFLVTFKQDTLSSDATRNENEDENLDAENIEQHLLEKG
PKYMAMLQKVANRELNSVIIDLDDILQYQNEKFLQGTQADDLVSAIQQNANHFTELFCRA
IDNNMPLPTKEIDYKDDVLDVILNQRRLRNERMLSDRTNEIRSENLMDTTMDPPSSMNDA
LREVVEDETELFPPNLTRRYFLYFKPLSQNCARRYRKKAISSKPLSVRQIKGDFLGQLIT
VRGIITRVSDVKPAVEVIAYTCDQCGYEVFQEVNSRTFTPLSECTSEECSQNQTKGQLFM
STRASKFSAFQECKIQELSQQVPVGHIPRSLNIHVNGTLVRSLSPGDIVDVTGIFLPAPY
TGFKALKAGLLTETYLEAQFVRQHKKKFASFSLTSDVEERVMELITSGDVYNRLAKSIAP
EIYGNLDVKKALLLLLVGGVDKRVGDGMKIRGDINVCLMGDPGVAKSQLLKAICKISPRG
VYTTGKGSSGVGLTAAVMKDPVTDEMILEGGALVLADNGICCIDEFDKMDESDRTAIHEV
MEQQTISISKAGINTTLNARTSILAAANPLYGRYNPRLSPLDNINLPAALLSRFDILFLM
LDIPSRDDDEKLAEHVTYVHMHNKQPDLDFTPVEPSKMREYIAYAKTKRPVMSEAVNDYV
VQAYIRLRQDSKREMDSKFSFGQATPRTLLGIIRLSQALAKLRLADMVDIDDVEEALRLV
RVSKESLYQETNKSKEDESPTTKIFTIIKKMLQETGKNTLSYENIVKTVRLRGFTMLQLS
NCIQEYSYLNVWHLINEGNTLKFVDDGTMDTDQEDSLVSTPKLAPQTTASANVSAQDSDI
DLQDA

Sequence of entity 7 (X), FASTA

>8RIF_7 DNA (53-MER) (chains X)
GCATGCATGCGCATGCATGCATGCATGCTGCATGCATGCATGCGCATGCATGC

Sequence of entity 8 (Y), FASTA

>8RIF_8 DNA (53-MER) (chains Y)
GCATGCATGCGCATGCATGCATGCAGCATGCATGCATGCATGCGCATGCATGC

Ligands and cofactors

ID	Name	Formula	Copies
ATP	Adenosine-5'-triphosphate	C10 H16 N5 O13 P3	2
MG	Magnesium ion	Mg	8
ZN	Zinc ion	Zn	10
ADP	Adenosine-5'-diphosphate	C10 H15 N5 O10 P2	6

Primary citation

Cell cycle regulation has shaped replication origins in budding yeast. Lim, C.T., Miller, T.C.R., Tan, K.W. et al. Nat Struct Mol Biol (2025) 32:1697-1707. DOI 10.1038/s41594-025-01591-9 · PubMed

Other PDB entries of the same protein (UniProt P29469 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7W8G 2.52 Å, Cryo-EM structure of MCM double hexamer
28VY 2.7 Å, sCMGE assembled on ARS1 DNA with Sld2 and RPA
7V3V 2.9 Å, Cryo-EM structure of MCM double hexamer bound with DDK in State I
9TH8 2.9 Å, Cryo-EM structure of MCM2-7 DH bound to Sld3-Sld7, Cdc45 and DNA
7P30 3.0 Å, 3.0 A resolution structure of a DNA-loaded MCM double hexamer
8KG6 3.07 Å, Yeast replisome in state I
9RHL 3.1 Å, Phospho-DH bound by Sld3-MBD on ARS1 DNA
7PMK 3.2 Å, S. cerevisiae replisome-SCF(Dia2) complex bound to double-stranded DNA (conformation I)
7PMN 3.2 Å, S. cerevisiae replisome-SCF(Dia2) complex bound to double-stranded DNA (conformation II)
7PT6 3.2 Å, Structure of MCM2-7 DH complexed with Cdc7-Dbf4 in the presence of ATPgS, state III
7V3U 3.2 Å, Cryo-EM structure of MCM double hexamer with structured Mcm4-NSD
9E2Y 3.2 Å, Cryo-EM structure of yeast CMG helicase stalled at G4-containing DNA template, state 3

Browse structure collections

About this viewer

MolViewer shows 8RIF directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.