8Q7V: Recycling U5 snRNP

Structure of the recycling U5 snRNP bound to chaperones CD2BP2 and TSSC4 (State 1). Determined by electron microscopy at 3.8 Å resolution. Released 17 Apr 2024.

Method: Electron microscopy
Resolution: 3.8 Å
Organism: Homo sapiens
Chains: 15
Atoms: 28,054
Mol. weight: 979.33 kDa
Ligands: MG, GTP
Released: 17 Apr 2024

Explore 8Q7V in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8Q7V contains 147 α-helices and 157 β-strands across 14 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: 3 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	3-7	5
β-strand	14-19	6	37
β-strand	24-32	9	37
β-strand	38-46	9	37
β-strand	52-60	9	37
α-helix	62-64	3
β-strand	65-69	5	37
α-helix	76-78	3

Chain A: 84 helices, 48 β-strands

Element	Residues	Length	Sheet
α-helix	28-44	17
α-helix	63-72	10
α-helix	86-89	4
α-helix	90-94	5
α-helix	95-103	9
α-helix	106-108	3
β-strand	115-121	7	1
β-strand	127	1	1
β-strand	134-135	2	2
α-helix	137-157	21
α-helix	163-165	3
α-helix	174-177	4
α-helix	178-181	4
α-helix	201-203	3
β-strand	220	1	3
β-strand	227-229	3	3
α-helix	232-241	10
α-helix	260-269	10
α-helix	310-315	6
α-helix	329-331	3
α-helix	335-337	3
α-helix	357-359	3
α-helix	371-373	3
α-helix	398-403	6
α-helix	404-406	3
α-helix	407-408	2
β-strand	415-417	3	3
β-strand	419-420	2	2
α-helix	421-423	3
α-helix	428-433	6
α-helix	435-436	2
α-helix	441-459	19
α-helix	463-466	4
α-helix	473-478	6
β-strand	482-488	7	1
α-helix	489-508	20
β-strand	516-518	3	4
β-strand	524-526	3	4
α-helix	532-536	5
α-helix	542-565	24
α-helix	571-583	13
α-helix	585-588	4
α-helix	591-593	3
α-helix	599-616	18
α-helix	631-656	26
α-helix	680-694	15
α-helix	699-705	7
α-helix	709-721	13
α-helix	724-726	3
α-helix	733-762	30
α-helix	769-797	29
α-helix	803-820	18
α-helix	822-824	3
β-strand	825	1	5
α-helix	826-827	2
α-helix	835-847	13
α-helix	849-851	3
α-helix	858-872	15
α-helix	874-886	13
α-helix	892-893	2
β-strand	894-899	6	6
β-strand	906-910	5	6
α-helix	913-932	20
β-strand	940	1	7
α-helix	948-960	13
β-strand	973-980	8	7
β-strand	982	1	8
β-strand	989	1	9
α-helix	990-997	8
β-strand	1001	1	5
α-helix	1003-1011	9
β-strand	1016-1019	4	6
β-strand	1022-1025	4	6
β-strand	1028	1	9
α-helix	1037-1052	16
α-helix	1055-1062	8
α-helix	1068-1070	3
β-strand	1085-1090	6	7
β-strand	1094-1101	8	7
α-helix	1103-1116	14
α-helix	1144-1159	16
β-strand	1167	1	8
β-strand	1174-1178	5	7
β-strand	1185-1189	5	10
β-strand	1192-1198	7	10
α-helix	1199-1201	3
β-strand	1213-1217	5	10
β-strand	1224-1232	9	10
α-helix	1234-1247	14
α-helix	1256-1271	16
α-helix	1283-1303	21
α-helix	1307-1308	2
α-helix	1313-1315	3
α-helix	1320-1322	3
β-strand	1332	1	11
β-strand	1334	1	12
α-helix	1335-1336	2
β-strand	1341-1346	6	13
β-strand	1349-1354	6	13
β-strand	1364	1	12
α-helix	1365-1367	3
α-helix	1369-1371	3
α-helix	1375-1398	24
α-helix	1419-1423	5
α-helix	1427-1430	4
α-helix	1436-1441	6
α-helix	1442-1445	4
α-helix	1458-1461	4
α-helix	1468-1477	10
α-helix	1480-1484	5
α-helix	1485-1487	3
β-strand	1502-1503	2	14
α-helix	1531-1537	7
α-helix	1539-1542	4
β-strand	1552-1555	4	15
β-strand	1561-1563	3	15
α-helix	1567-1576	10
α-helix	1581-1598	18
β-strand	1606-1611	6	16
β-strand	1626	1	17
β-strand	1629-1637	9	16
β-strand	1640	1	18
β-strand	1643-1644	2	16
β-strand	1652	1	18
β-strand	1657-1667	11	16
α-helix	1676-1687	12
β-strand	1694	1	17
β-strand	1700-1706	7	16
β-strand	1711-1716	6	16
α-helix	1722-1736	15
α-helix	1738-1751	14
β-strand	1753-1754	2	14

Chain b: 3 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	7-10	4
β-strand	16-21	6	37
β-strand	26-33	8	37
β-strand	40-48	9	37
β-strand	64-72	9	37
α-helix	74-76	3
β-strand	77-84	8	37
α-helix	85-87	3

Chain B: 1 helix, 1 β-strand

Element	Residues	Length	Sheet
β-strand	41	1	11
α-helix	58-62	5

Chain c: 3 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	19-22	4
α-helix	30-37	8
β-strand	42-46	5	37
β-strand	50-58	9	37
β-strand	65-76	12	37
β-strand	90-101	12	37
β-strand	108-111	4	37
α-helix	112-113	2

Chain C: 41 helices, 37 β-strands

Element	Residues	Length	Sheet
α-helix	116-122	7
β-strand	129-136	8	19
α-helix	142-153	12
α-helix	172-177	6
β-strand	184-191	8	19
β-strand	197-204	8	19
α-helix	209-211	3
α-helix	213-219	7
β-strand	224-230	7	19
α-helix	237-248	12
β-strand	252-258	7	19
α-helix	260-263	4
α-helix	271-292	22
α-helix	302-304	3
β-strand	307-311	5	19
β-strand	316-318	3	19
α-helix	320-330	11
α-helix	336-339	4
α-helix	340-342	3
β-strand	348-350	3	20
β-strand	355-357	3	20
α-helix	365-367	3
α-helix	368-369	2
α-helix	370-374	5
α-helix	375-385	11
α-helix	392-398	7
α-helix	405-408	4
α-helix	412-424	13
α-helix	428-436	9
α-helix	445-452	8
β-strand	453	1	21
α-helix	460-465	6
β-strand	475-483	9	22
β-strand	490-498	9	22
β-strand	501-502	2	23
β-strand	506-510	5	22
β-strand	522-526	5	22
β-strand	530-533	4	22
β-strand	538-541	4	22
β-strand	543-544	2	23
β-strand	549-553	5	22
β-strand	563-566	4	22
α-helix	576	1
β-strand	577	1	21
α-helix	578-580	3
β-strand	588-594	7	24
α-helix	597-599	3
α-helix	600-613	14
β-strand	618-621	4	24
β-strand	627-631	5	24
α-helix	634-643	10
α-helix	644-649	6
β-strand	653-655	3	24
β-strand	659-660	2	24
β-strand	663-666	4	25
α-helix	669-670	2
β-strand	674-677	4	26
β-strand	684-690	7	26
α-helix	691-693	3
α-helix	696-701	6
α-helix	712-720	9
α-helix	726-731	6
β-strand	732-736	5	26
β-strand	741-747	7	26
α-helix	756-774	19
β-strand	784	1	25
β-strand	788-795	8	26
α-helix	805-822	18
β-strand	825-838	14	25
α-helix	843-850	8
β-strand	856-862	7	25
α-helix	863	1
β-strand	869-876	8	25
α-helix	883-890	8
β-strand	896-906	11	25
α-helix	907	1
α-helix	926-928	3
α-helix	929-941	13

Chain d: 3 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	5-12	8
β-strand	17-22	6	37
β-strand	27-35	9	37
β-strand	41-49	9	37
β-strand	55-63	9	37
β-strand	68-73	6	37
α-helix	75-79	5
α-helix	81-83	3

Chain D: 0 helices, 31 β-strands

Element	Residues	Length	Sheet
β-strand	61-63	3	27
β-strand	69-74	6	28
β-strand	80-85	6	28
β-strand	89-94	6	28
β-strand	101-106	6	28
β-strand	112-117	6	29
β-strand	123-128	6	29
β-strand	133-137	5	29
β-strand	143-147	5	29
β-strand	154-159	6	30
β-strand	166	1	31
β-strand	167-171	5	30
β-strand	175-177	3	30
β-strand	180	1	31
β-strand	189-191	3	30
β-strand	196-201	6	32
β-strand	207-212	6	32
β-strand	216-221	6	32
β-strand	227-232	6	32
β-strand	238-243	6	33
β-strand	249-254	6	33
β-strand	258-263	6	33
β-strand	275-277	3	33
β-strand	291-293	3	34
β-strand	299-302	4	34
β-strand	309-313	5	34
β-strand	319-323	5	34
β-strand	330-335	6	27
β-strand	341-346	6	27
β-strand	350-352	3	27
β-strand	354-355	2	27

6 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
U5 snRNA	5	RNA	117	Homo sapiens
Pre-mRNA-processing-splicing factor 8	A	protein	2335	Homo sapiens	Q6P2Q9 (AlphaFold model)
U5 small nuclear ribonucleoprotein 200 kDa helicase	B	protein	2136	Homo sapiens	O75643 (AlphaFold model)
116 kDa U5 small nuclear ribonucleoprotein component	C	protein	972	Homo sapiens	Q15029 (AlphaFold model)
U5 small nuclear ribonucleoprotein 40 kDa protein	D	protein	357	Homo sapiens	Q96DI7 (AlphaFold model)
Pre-mRNA-processing factor 6	F	protein	941	Homo sapiens	O94906
CD2 antigen cytoplasmic tail-binding protein 2	G	protein	343	Homo sapiens	O95400
Protein TSSC4	H	protein	329	Homo sapiens	Q9Y5U2
Small nuclear ribonucleoprotein Sm D1	a	protein	119	Homo sapiens	P62314
Small nuclear ribonucleoprotein-associated proteins B and B'	b	protein	240	Homo sapiens	P14678
Small nuclear ribonucleoprotein Sm D2	c	protein	118	Homo sapiens	P62316
Small nuclear ribonucleoprotein Sm D3	d	protein	126	Homo sapiens	P62318

3 more molecules are not listed.

Sequence of entity 1 (5), FASTA

>8Q7V_1 U5 snRNA (chains 5)
AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGG
AGAGGAACAACUCUGAGUCUUAACCCAAUUUUUUGAGGCCUUGCUUUGGCAAGGCUA

Sequence of entity 2 (A), FASTA

>8Q7V_2 Pre-mRNA-processing-splicing factor 8 (chains A)
MAGVFPYRGPGNPVPGPLAPLPDYMSEEKLQEKARKWQQLQAKRYAEKRKFGFVDAQKED
MPPEHVRKIIRDHGDMTNRKFRHDKRVYLGALKYMPHAVLKLLENMPMPWEQIRDVPVLY
HITGAISFVNEIPWVIEPVYISQWGSMWIMMRREKRDRRHFKRMRFPPFDDEEPPLDYAD
NILDVEPLEAIQLELDPEEDAPVLDWFYDHQPLRDSRKYVNGSTYQRWQFTLPMMSTLYR
LANQLLTDLVDDNYFYLFDLKAFFTSKALNMAIPGGPKFEPLVRDINLQDEDWNEFNDIN
KIIIRQPIRTEYKIAFPYLYNNLPHHVHLTWYHTPNVVFIKTEDPDLPAFYFDPLINPIS
HRHSVKSQEPLPDDDEEFELPEFVEPFLKDTPLYTDNTANGIALLWAPRPFNLRSGRTRR
ALDIPLVKNWYREHCPAGQPVKVRVSYQKLLKYYVLNALKHRPPKAQKKRYLFRSFKATK
FFQSTKLDWVEVGLQVCRQGYNMLNLLIHRKNLNYLHLDYNFNLKPVKTLTTKERKKSRF
GNAFHLCREVLRLTKLVVDSHVQYRLGNVDAFQLADGLQYIFAHVGQLTGMYRYKYKLMR
QIRMCKDLKHLIYYRFNTGPVGKGPGCGFWAAGWRVWLFFMRGITPLLERWLGNLLARQF
EGRHSKGVAKTVTKQRVESHFDLELRAAVMHDILDMMPEGIKQNKARTILQHLSEAWRCW
KANIPWKVPGLPTPIENMILRYVKAKADWWTNTAHYNRERIRRGATVDKTVCKKNLGRLT
RLYLKAEQERQHNYLKDGPYITAEEAVAVYTTTVHWLESRRFSPIPFPPLSYKHDTKLLI
LALERLKEAYSVKSRLNQSQREELGLIEQAYDNPHEALSRIKRHLLTQRAFKEVGIEFMD
LYSHLVPVYDVEPLEKITDAYLDQYLWYEADKRRLFPPWIKPADTEPPPLLVYKWCQGIN
NLQDVWETSEGECNVMLESRFEKMYEKIDLTLLNRLLRLIVDHNIADYMTAKNNVVINYK
DMNHTNSYGIIRGLQFASFIVQYYGLVMDLLVLGLHRASEMAGPPQMPNDFLSFQDIATE
AAHPIRLFCRYIDRIHIFFRFTADEARDLIQRYLTEHPDPNNENIVGYNNKKCWPRDARM
RLMKHDVNLGRAVFWDIKNRLPRSVTTVQWENSFVSVYSKDNPNLLFNMCGFECRILPKC
RTSYEEFTHKDGVWNLQNEVTKERTAQCFLRVDDESMQRFHNRVRQILMASGSTTFTKIV
NKWNTALIGLMTYFREAVVNTQELLDLLVKCENKIQTRIKIGLNSKMPSRFPPVVFYTPK
ELGGLGMLSMGHVLIPQSDLRWSKQTDVGITHFRSGMSHEEDQLIPNLYRYIQPWESEFI
DSQRVWAEYALKRQEAIAQNRRLTLEDLEDSWDRGIPRINTLFQKDRHTLAYDKGWRVRT
DFKQYQVLKQNPFWWTHQRHDGKLWNLNNYRTDMIQALGGVEGILEHTLFKGTYFPTWEG
LFWEKASGFEESMKWKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGI
FMHGKIPTLKISLIQIFRAHLWQKIHESIVMDLCQVFDQELDALEIETVQKETIHPRKSY
KMNSSCADILLFASYKWNVSRPSLLADSKDVMDSTTTQKYWIDIQLRWGDYDSHDIERYA
RAKFLDYTTDNMSIYPSPTGVLIAIDLAYNLHSAYGNWFPGSKPLIQQAMAKIMKANPAL
YVLRERIRKGLQLYSSEPTEPYLSSQNYGELFSNQIIWFVDDTNVYRVTIHKTFEGNLTT
KPINGAIFIFNPRTGQLFLKIIHTSVWAGQKRLGQLAKWKTAEEVAALIRSLPVEEQPKQ
IIVTRKGMLDPLEVHLLDFPNIVIKGSELQLPFQACLKVEKFGDLILKATEPQMVLFNLY
DDWLKTISSYTAFSRLILILRALHVNNDRAKVILKPDKTTITEPHHIWPTLTDEEWIKVE
VQLKDLILADYGKKNNVNVASLTQSEIRDIILGMEISAPSQQRQQIAEIEKQTKEQSQLT
ATQTRTVNKHGDEIITSTTSNYETQTFSSKTEWRVRAISAANLHLRTNHIYVSSDDIKET
GYTYILPKNVLKKFICISDLRAQIAGYLYGVSPPDNPQVKEIRCIVMVPQWGTHQTVHLP
GQLPQHEYLKEMEPLGWIHTQPNESPQLSPQDVTTHAKIMADNPSWDGEKTIIITCSFTP
GSCTLTAYKLTPSGYEWGRQNTDKGNNPKGYLPSHYERVQMLLSDRFLGFFMVPAQSSWN
YNFMGVRHDPNMKYELQLANPKEFYHEVHRPSHFLNFALLQEGEVYSADREDLYA

Sequence of entity 3 (B), FASTA

>8Q7V_3 U5 small nuclear ribonucleoprotein 200 kDa helicase (chains B)
MADVTARSLQYEYKANSNLVLQADRSLIDRTRRDEPTGEVLSLVGKLEGTRMGDKAQRTK
PQMQEERRAKRRKRDEDRHDINKMKGYTLLSEGIDEMVGIIYKPKTKETRETYEVLLSFI
QAALGDQPRDILCGAADEVLAVLKNEKLRDKERRKEIDLLLGQTDDTRYHVLVNLGKKIT
DYGGDKEIQNMDDNIDETYGVNVQFESDEEEGDEDVYGEVREEASDDDMEGDEAVVRCTL
SANLVASGELMSSKKKDLHPRDIDAFWLQRQLSRFYDDAIVSQKKADEVLEILKTASDDR
ECENQLVLLLGFNTFDFIKVLRQHRMMILYCTLLASAQSEAEKERIMGKMEADPELSKFL
YQLHETEKEDLIREERSRRERVRQSRMDTDLETMDLDQGGEALAPRQVLDLEDLVFTQGS
HFMANKRCQLPDGSFRRQRKGYEEVHVPALKPKPFGSEEQLLPVEKLPKYAQAGFEGFKT
LNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIY
IAPMRSLVQEMVGSFGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKG
GERTYTQLVRLIILDEIHLLHDDRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYED
VATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQ
VLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEVLRTEAEQCKNLELKDLLPY
GFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGR
WTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDM
LNAEIVLGNVQNAKDAVNWLGYAYLYIRMLRSPTLYGISHDDLKGDPLLDQRRLDLVHTA
ALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITNDTVQTYNQLLKPTLSEIELFRVFSL
SSEFKNITVREEEKLELQKLLERVPIPVKESIEEPSAKINVLLQAFISQLKLEGFALMAD
MVYVTQSAGRLMRAIFEIVLNRGWAQLTDKTLNLCKMIDKRMWQSMCPLRQFRKLPEEVV
KKIEKKNFPFERLYDLNHNEIGELIRMPKMGKTIHKYVHLFPKLELSVHLQPITRSTLKV
ELTITPDFQWDEKVHGSSEAFWILVEDVDSEVILHHEYFLLKAKYAQDEHLITFFVPVFE
PLPPQYFIRVVSDRWLSCETQLPVSFRHLILPEKYPPPTELLDLQPLPVSALRNSAFESL
YQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYIT
PMEALAEQVYMDWYEKFQDRLNKKVVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRWK
QRKNVQNINLFVVDEVHLIGGENGPVLEVICSRMRYISSQIERPIRIVALSSSLSNAKDV
AHWLGCSATSTFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKPVYHAITKHSPKKPVI
VFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTEKDLIPYLEKLSDSTLKETLLNGVGYL
HEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVIIMDTQYYNGKIHAYVDYP
IYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLYEPLPVESHLDHCMHDHFNAEI
VTKTIENKQDAVDYLTWTFLYRRMTQNPNYYNLQGISHRHLSDHLSELVEQTLSDLEQSK
CISIEDEMDVAPLNLGMIAAYYYINYTTIELFSMSLNAKTKVRGLIEIISNAAEYENIPI
RHHEDNLLRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRMQLSAELQSDTEEILSKAI
RLIQACVDVLSSNGWLSPALAAMELAQMVTQAMWSKDSYLKQLPHFTSEHIKRCTDKGVE
SVFDIMEMEDEERNALLQLTDSQIADVARFCNRYPNIELSYEVVDKDSIRSGGPVVVLVQ
LEREEEVTGPVIAPLFPQKREEGWWVVIGDAKSNSLISIKRLTLQQKAKVKLDFVAPATG
AHNYTLYFMSDAYMGCDQEYKFSVDVKEAETDSDSD

Sequence of entity 4 (C), FASTA

>8Q7V_4 116 kDa U5 small nuclear ribonucleoprotein component (chains C)
MDTDLYDEFGNYIGPELDSDEDDDELGRETKDLDEMDDDDDDDDVGDHDDDHPGMEVVLH
EDKKYYPTAEEVYGPEVETIVQEEDTQPLTEPIIKPVKTKKFTLMEQTLPVTVYEMDFLA
DLMDNSELIRNVTLCGHLHHGKTCFVDCLIEQTHPEIRKRYDQDLCYTDILFTEQERGVG
IKSTPVTVVLPDTKGKSYLFNIMDTPGHVNFSDEVTAGLRISDGVVLFIDAAEGVMLNTE
RLIKHAVQERLAVTVCINKIDRLILELKLPPTDAYYKLRHIVDEVNGLISMYSTDENLIL
SPLLGNVCFSSSQYSICFTLGSFAKIYADTFGDINYQEFAKRLWGDIYFNPKTRKFTKKA
PTSSSQRSFVEFILEPLYKILAQVVGDVDTSLPRTLDELGIHLTKEELKLNIRPLLRLVC
KKFFGEFTGFVDMCVQHIPSPKVGAKPKIEHTYTGGVDSDLGEAMSDCDPDGPLMCHTTK
MYSTDDGVQFHAFGRVLSGTIHAGQPVKVLGENYTLEDEEDSQICTVGRLWISVARYHIE
VNRVPAGNWVLIEGVDQPIVKTATITEPRGNEEAQIFRPLKFNTTSVIKIAVEPVNPSEL
PKMLDGLRKVNKSYPSLTTKVEESGEHVILGTGELYLDCVMHDLRKMYSEIDIKVADPVV
TFCETVVETSSLKCFAETPNKKNKITMIAEPLEKGLAEDIENEVVQITWNRKKLGEFFQT
KYDWDLLAARSIWAFGPDATGPNILVDDTLPSEVDKALLGSVKDSIVQGFQWGTREGPLC
DELIRNVKFKILDAVVAQEPLHRGGGQIIPTARRVVYSAFLMATPRLMEPYYFVEVQAPA
DCVSAVYTVLARRRGHVTQDAPIPGSPLYTIKAFIPAIDSFGFETDLRTHTQGQAFSLSV
FHHWQIVPGDPLDKSIVIRPLEPQPAPHLAREFMIKTRRRKGLSEDVSISKFFDDPMLLE
LAKQDVVLNYPM

Sequence of entity 5 (D), FASTA

>8Q7V_5 U5 small nuclear ribonucleoprotein 40 kDa protein (chains D)
MIEQQKRKGPELPLVPVKRQRHELLLGAGSGPGAGQQQATPGALLQAGPPRCSSLQAPIM
LLSGHEGEVYCCKFHPNGSTLASAGFDRLILLWNVYGDCDNYATLKGHSGAVMELHYNTD
GSMLFSASTDKTVAVWDSETGERVKRLKGHTSFVNSCYPARRGPQLVCTGSDDGTVKLWD
IRKKAAIQTFQNTYQVLAVTFNDTSDQIISGGIDNDIKVWDLRQNKLTYTMRGHADSVTG
LSLSSEGSYLLSNAMDNTVRVWDVRPFAPKERCVKIFQGNVHNFEKNLLRCSWSPDGSKI
AAGSADRFVYVWDTTSRRILYKLPGHAGSINEVAFHPDEPIIISASSDKRLYMGEIQ

Sequence of entity 6 (F), FASTA

>8Q7V_6 Pre-mRNA-processing factor 6 (chains F)
MNKKKKPFLGMPAPLGYVPGLGRGATGFTTRSDIGPARDANDPVDDRHAPPGKRTVGDQM
KKNQAADDDDEDLNDTNYDEFNGYAGSLFSSGPYEKDDEEADAIYAALDKRMDERRKERR
EQREKEEIEKYRMERPKIQQQFSDLKRKLAEVTEEEWLSIPEVGDARNKRQRNPRYEKLT
PVPDSFFAKHLQTGENHTSVDPRQTQFGGLNTPYPGGLNTPYPGGMTPGLMTPGTGELDM
RKIGQARNTLMDMRLSQVSDSVSGQTVVDPKGYLTDLNSMIPTHGGDINDIKKARLLLKS
VRETNPHHPPAWIASARLEEVTGKLQVARNLIMKGTEMCPKSEDVWLEAARLQPGDTAKA
VVAQAVRHLPQSVRIYIRAAELETDIRAKKRVLRKALEHVPNSVRLWKAAVELEEPEDAR
IMLSRAVECCPTSVELWLALARLETYENARKVLNKARENIPTDRHIWITAAKLEEANGNT
QMVEKIIDRAITSLRANGVEINREQWIQDAEECDRAGSVATCQAVMRAVIGIGIEEEDRK
HTWMEDADSCVAHNALECARAIYAYALQVFPSKKSVWLRAAYFEKNHGTRESLEALLQRA
VAHCPKAEVLWLMGAKSKWLAGDVPAARSILALAFQANPNSEEIWLAAVKLESENDEYER
ARRLLAKARSSAPTARVFMKSVKLEWVQDNIRAAQDLCEEALRHYEDFPKLWMMKGQIEE
QKEMMEKAREAYNQGLKKCPHSTPLWLLLSRLEEKIGQLTRARAILEKSRLKNPKNPGLW
LESVRLEYRAGLKNIANTLMAKALQECPNSGILWSEAIFLEARPQRRTKSVDALKKCEHD
PHVLLAVAKLFWSQRKITKAREWFHRTVKIDSDLGDAWAFFYKFELQHGTEEQQEEVRKR
CESAEPRHGELWCAVSKDIANWQKKIGDILRLVAGRIKNTF

Sequence of entity 7 (G), FASTA

>8Q7V_7 CD2 antigen cytoplasmic tail-binding protein 2 (chains G)
GPMPKRKVTFQGVGDEEDEDEIIVPKKKLVDPVAGSGGPGSRFKGKHSLDSDEEEDDDDG
GSSKYDILASEDVEGQEAATLPSEGGVRITPFNLQEEMEEGHFDADGNYFLNRDAQIRDS
WLDNIDWVKIRERPPGQRQASDSEEEDSLGQTSMSAQALLEGLLELLLPRETVAGALRRL
GARGGGKGRKGPGQPSSPQRLDRLSGLADQMVARGNLGVYQETRERLAMRLKGLGCQTLG
PHNPTPPPSLDMFAEELAEEELETPTPTQRGEAESRGDGLVDVMWEYKWENTGDAELYGP
FTSAQMQTWVSEGYFPDGVYCRKLDPPGGQFYNSKRIDFDLYT

Sequence of entity 8 (H), FASTA

>8Q7V_8 Protein TSSC4 (chains H)
MAEAGTGEPSPSVEGEHGTEYDTLPSDTVSLSDSDSDLSLPGGAEVEALSPMGLPGEEDS
GPDEPPSPPSGLLPATVQPFHLRGMSSTFSQRSRDIFDCLEGAARRAPSSVAHTSMSDNG
GFKRPLAPSGRSPVEGLGRAHRSPASPRVPPVPDYVAHPERWTKYSLEDVTEVSEQSNQA
TALAFLGSQSLAAPTDCVSSFNQDPSSCGEGRVIFTKPVRGVEARHERKRVLGKVGEPGR
GGLGNPATDRGEGPVELAHLAGPGSPEAEEWGSHHGGLQEVEALSGSVHSGSVPGLPPVE
TVGFHGSRKRSRDHFRNKSSSPEDPGAEV

Sequence of entity 9 (a), FASTA

>8Q7V_9 Small nuclear ribonucleoprotein Sm D1 (chains a)
MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSI
RGNNIRYFILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRGRGRGRGRGGPRR

Sequence of entity 10 (b), FASTA

>8Q7V_10 Small nuclear ribonucleoprotein-associated proteins B and B' (chains b)
MTVGKSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAE
REEKRVLGLVLLRGENLVSMTVEGPPPKDTGIARVPLAGAAGGPGIGRAAGRGIPAGVPM
PQAPAGLAGPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMG
RGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGMPPPGMRPPPPGMRGPPPPGMRPPRP

Sequence of entity 11 (c), FASTA

>8Q7V_11 Small nuclear ribonucleoprotein Sm D2 (chains c)
MSLLNKPKSEMTPEELQKREEEEFNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFD
RHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNPLIAGK

Sequence of entity 12 (d), FASTA

>8Q7V_12 Small nuclear ribonucleoprotein Sm D3 (chains d)
MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQ
VYIRGSKIRFLILPDMLKNAPMLKSMKNKNQGSGAGRGKAAILKAQVAARGRGRGMGRGN
IFQKRR

Ligands and cofactors

ID	Name	Formula	Copies
MG	Magnesium ion	Mg	1
GTP	Guanosine-5'-triphosphate	C10 H16 N5 O14 P3	1

Primary citation

Structural basis of human U5 snRNP late biogenesis and recycling. Riabov Bassat, D., Visanpattanasin, S., Vorlander, M.K. et al. Nat Struct Mol Biol (2024) 31:747-751. DOI 10.1038/s41594-024-01243-4 · PubMed

Other PDB entries of the same protein (UniProt Q6P2Q9 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4JK8 1.15 Å, Open and closed forms of R1865A human PRP8 RNase H-like domain with bound Mg ion
4JKB 1.3 Å, Open and closed forms of V1788D human PRP8 RNase H-like domain with bound Mg ion
4JKA 1.32 Å, Open and closed forms of R1865A human PRP8 RNase H-like domain with bound Co ion
4JK7 1.4 Å, Open and closed forms of wild-type human PRP8 RNase H-like domain with bound Mg ion
4JK9 1.5 Å, Open and closed forms of wild-type human PRP8 RNase H-like domain with bound Co ion
4JKC 1.5 Å, Open and closed forms of T1800E human PRP8 RNase H-like domain with bound Mg ion
4JKD 1.55 Å, Open and closed forms of I1790Y human PRP8 RNase H-like domain with bound Mg ion
4JKE 1.65 Å, Open and closed forms of T1789P human PRP8 RNase H-like domain with bound Mg ion
4JKG 1.8 Å, Open and closed forms of mixed T1789P+R1865A and R1865A human PRP8 RNase H-like domain…
4JKH 1.8 Å, Open and closed forms of D1781E human PRP8 RNase H-like domain with bound Mg ion
3ENB 1.85 Å, Crystal Structure of PRP8 core domain IV
3LRU 1.85 Å, hPRP8 Non-Native Subdomain

Browse structure collections

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