9T0E: Nanobody 20096

Structure of Crimean Congo hemorrhagic fever virus (CCHFV) L protein bound to 5' vRNA and nanobody 20096. Determined by electron microscopy at 2.3 Å resolution. Released 17 Jun 2026.

Method
Electron microscopy
Resolution
2.3 Å
Organisms
Lama glama, Crimean-Congo hemorrhagic fever virus strain IbAr10200
Chains
3
Atoms
14,830
Mol. weight
472.94 kDa
Ligands
MG, ZN
Released
17 Jun 2026

Explore 9T0E in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9T0E contains 102 α-helices and 68 β-strands across 2 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: 101 helices, 56 β-strands

ElementResiduesLengthSheet
α-helix931-94616
β-strand94714
β-strand95314
α-helix956-9638
α-helix964-9696
β-strand971-97225
α-helix974-98613
α-helix988-9969
β-strand1003-100426
α-helix1009-102416
α-helix1029-104012
α-helix1045-105612
β-strand105717
α-helix1058-10603
α-helix1077-10804
α-helix1085-10873
α-helix1106-11116
α-helix1119-113820
β-strand1143-114538
β-strand115019
β-strand1151-115338
α-helix1172-118615
α-helix1189-11935
α-helix1197-120812
β-strand1219-122028
α-helix1222-123110
α-helix1238-125316
β-strand1262110
β-strand126417
α-helix1267-128014
β-strand1283111
α-helix12841
α-helix1292-12954
α-helix1298-130811
α-helix1316-132712
β-strand1330111
α-helix1331-134919
β-strand1358-136259
α-helix13631
β-strand1369-137359
β-strand1382-138769
β-strand1393-140089
α-helix1402-142524
α-helix1429-14346
α-helix1437-146226
α-helix1466-148015
α-helix1488-150114
α-helix1502-15065
α-helix1508-15125
α-helix1516-15238
α-helix1525-15306
α-helix1531-15333
β-strand1536-153726
α-helix1539-15446
β-strand1550110
α-helix1553-157119
α-helix1573-15808
α-helix15911
β-strand1592112
α-helix15931
β-strand1600112
α-helix1604-16107
α-helix1613-16153
α-helix1624-164926
α-helix1659-16657
β-strand1754-175525
α-helix1759-177214
α-helix1781-179111
α-helix1792-17943
α-helix1797-18048
α-helix1807-18104
β-strand1812113
β-strand1829114
α-helix1832-185322
α-helix1873-18764
α-helix1884-189512
β-strand2250113
α-helix2251-22588
β-strand2267-2269315
β-strand2284-2285215
α-helix2287-230519
β-strand231016
α-helix2317-233519
β-strand233916
β-strand2346-2356116
α-helix2368-237811
α-helix2383-239614
β-strand2399-2402415
α-helix2403-24042
α-helix2405-242218
α-helix2430-243910
α-helix2440-24445
α-helix2448-24569
α-helix2458-24603
β-strand2462114
β-strand2464-2467415
α-helix2477-250226
β-strand2506-251496
β-strand2519-2530126
α-helix2531-255828
β-strand2568-257036
β-strand2574-2576316
β-strand2579-2581316
β-strand2586-2587216
α-helix2590-25934
α-helix2596-25994
α-helix2606-262217
β-strand2623117
α-helix2627-264216
α-helix2646-26483
α-helix2649-26535
α-helix2654-26563
α-helix2661-26633
α-helix2665-26673
α-helix2679-269618
α-helix2698-27003
α-helix27021
β-strand2703118
α-helix27041
α-helix2754-276411
α-helix2765-27684
α-helix2771-278212
α-helix2802-28043
α-helix2807-28148
α-helix2817-283519
β-strand2837119
β-strand2860119
β-strand2864120
α-helix2898-291013
α-helix2948-29525
β-strand2958-2959220
β-strand2969120
β-strand2991-2992220
α-helix2994-30029
β-strand3005-3009518
β-strand3027-3031518
β-strand3037-3042618
α-helix3043-306018
α-helix3063-30719
β-strand3076-3081621
β-strand3086-3090517
β-strand3101122
α-helix3105-31139
α-helix3115-31184
α-helix3131-314111
α-helix3143-316220
α-helix3168-31714
α-helix3174-318310
α-helix31861
β-strand3187122
α-helix3188-31892
α-helix3192-31943
β-strand3195-3199517
α-helix3206-32072
α-helix3209-32168
β-strand3221-3225521
α-helix32261
Chain C: 1 helix, 12 β-strands
ElementResiduesLengthSheet
β-strand4-521
β-strand1112
β-strand17-2481
β-strand32-3983
β-strand46-5273
β-strand57-5933
β-strand69-7241
β-strand77-8371
α-helix87-893
β-strand91-101113
β-strand105-11063
β-strand114-11633
β-strand11712

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Nanobody 20096Cprotein130Lama glama
RNA (5'-r(p*up*cp*up*cp*ap*ap*ap*gp*ap*up*ap*up*a)-3')RRNA16Crimean-Congo hemorrhagic fever virus strain IbAr10200
RNA-directed RNA polymerase LAprotein3990Crimean-Congo hemorrhagic fever virus strain IbAr10200Q6TQR6 (AlphaFold model)
Sequence of entity 1 (C), FASTA
>9T0E_1 Nanobody 20096 (chains C)
QVQLVESGGGLVQPGGSLRLSCAASGSIFSINAMGWYRQAPGRQRELVAAITSGGITDYA
GFVKGRFAISRDNAKNTVYLQMNSLKPEDTAVYYCNAYELRPIQGARNYWGQGTQVTVSS
HHHHHHEPEA
Sequence of entity 2 (R), FASTA
>9T0E_2 RNA (5'-R(P*UP*CP*UP*CP*AP*AP*AP*GP*AP*UP*AP*UP*A)-3') (chains R)
UCUCAAAGAUAUAGCA
Sequence of entity 3 (A), FASTA
>9T0E_3 RNA-directed RNA polymerase L (chains A)
MWSHPQFEKGGGSGGGSGGSSAWSHPQFEKHHHHHHHHENLYFQGMDFLRSLDWTQVIAG
QYVSNPRFNISDYFEIVRQPGDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQE
EPEARLVGLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGD
GDVFTAVNLLHSGQTHFDALRILPQFETDTREALSLMDRVIAVDQLTSSSSDELQDYEDL
ALALTSAEESNRRSSLDEVTLSKKQAEILRQKASQLSKLVNKSQNIPTRVGRVLDCMFNC
KLCVEISADTLILRPESKEKIGEIMSLRQLGHKLLTRDKQIKQEFSRMKLYVTKDLLDHL
DVGGLLRAAFPGTGIERHMQLLHSEMILDICTVSLGVMLSTFLYGSNNKNKKKFITNCLL
STALSGKKVYKVLGNLGNELLYKAPRKALATVCSALFGKQINKLQNCFRTISPVSLLALR
NLDFDCLSVQDYNGMIENMSKLDNTDVEFNHREIADLNQLTSRLITLRKEKDTDLLKQWF
PESDLTRRSIRNAANAEEFVISEFFKKKDIMKFISTSGRAMSAGKIGNVLSYAHNLYLSK
SSLNMTSEDISQLLIEIKRLYALQEDSEVEPIAIICDGIESNMKQLFAILPPDCARECEV
LFDDIRNSPTHSTAWKHALRLKGTAYEGLFANCYGWQYIPEDIKPSLTMLIQTLFPDKFE
DFLDRTQLHPEFRDLTPDFSLTQKVHFKRNQIPSVENVQISIDATLPESVEAVPVTERKM
FPLPETPLSEVHSIERIMENFTRLMHGGRLSTKKRDGDPAEQGNQQSITEHESSSISAFK
DYGERGIVEENHMKFSGEDQLETRQLLLVEVGFQTDIDGKIRTDHKKWKDILKLLELLGI
KCSFIACADCSSTPPDRWWITEDRVRVLKNSVSFLFNKLSRNSPTEVTDIVVGAISTQKV
RSYLKAGTATKTPVSTKDVLETWEKMKEHILNRPTGLTLPTSLEQAMRKGLVEGVVISKE
GSESCINMLKENLDRITDEFERTKFKHELTQNITTSEKMLLSWLSEDIKSSRCGECLSNI
KKAVDETANLSGKIELLAYNLQLTNHCSNCHPNGVNISNTSNVCKRCPKIEVVSHCENKG
FEDSNECLTDLDRLVRLTLPGKTEKERRVKRNVEYLIKLMMSMSGIDCIKYPTGQLITHG
RVSAKHNDGNLKDRSDDDQRLAEKIDTVRKELSESKLKDYSTYARGVISNSLKNLSRQGK
SKCSVPRSWLEKVLFDLKVPTKDEEVLINIRNSLKARSEFVRNNDKLLIRSKEELKKCFD
VQSFKLKKNKQPVPFQVDCILFKEVAAECMKRYIGTPYEGIVDTLVSLINVLTRFTWFQE
VVLYGKICETFLRCCTEFNRSGVKLVKIRHCNINLSVKLPSNKKENMLCCLYSGNMELLQ
GPFYLNRRQAVLGSSYLYIVITLYIQVLQQYRCLEVINSVSEKTLQDIENHSMTLLEDSF
REITFALEGRFEESYKIRTSRCRASGNFLNRSSRDHFISVVSGLNLVYGFLIKDNLLANS
QQQNKQLQMLRFGMLAGLSRLVCPNELGKKFSTSCRRIEDNIARLYLQTSIYCSVRDVED
NVKHWKQRDLCPEVTIPCFTVYGTFVNSDRQLIFDIYNVHIYNKEMDNFDEGCISVLEET
AERHMLWELDLMNSLCSDEKKDTRPARLLLGCPNVRKAATREGKKLLKLNSDTSTDTQSI
ASEVSDRRSYSSSKSRIRSIFGRYNSQKKPFELRSGLEVFNDPFNDYQQAITDICQFSEY
TPNKESILKDCLQIIRKNPSHTMGSFELIQAISEFGMSKFPPENIDKARRDPKNWVSISE
VTETTSIVASPRTHMMLKDCFKIILGTENKKIVKMLRGKLKKLGAISTNIEIGKRDCLDL
LSTVDGLTDQQKENIVNGIFEPSKLSFYHWKELVKKNIDEVLLTEDGNLIFCWLKTISSS
VKGSLKKRLKFMNIHSPELMPENCLFSSEEFNELIKLKKLLLNEQQDEQELKQDLLISSW
IKCITACKDFASINDKIQKFIYHLSEELYDIRLQHLELSKLKQEHPSVSFTKEEVLIKRL
EKNFLKQHNLEIMETVNLVFFAALSAPWCLHYKALESYLVRHPEILDCGSKEDCKLTLLD
LSVSKLLVCLYQKDDEELINSSSLKLGFLVKYVVTLFTSNGEPFSLSLNDGGLDLDLHKT
TDEKLLHQTKIVFAKIGLSGNSYDFIWTTQMIANSNFNVCKRLTGRSTGERLPRSVRSKV
IYEMVKLVGETGMAILQQLAFAQALNYEHRFYAVLAPKAQLGGARDLLVQETGTKVMHAT
TEMFSRNLLKTTSDDGLTNPHLKETILNVGLDCLANMRNLDGKPISEGSNLVNFYKVICI
SGDNTKWGPIHCCSFFSGMMQQVLKNVPDWCSFYKLTFIKNLCRQVEIPAGSIKKILNVL
RYRLCSKGGVEQHSEEDLRRLLTDNLDSWDGNDTVKFLVTTYISKGLMALNSYNHMGQGI
HHATSSVLTSLAAVLFEELAIFYLKRSLPQTTVHVEHAGSSDDYAKCIVVTGILSKELYS
QYDETFWKHACRLKNFTAAVQRCCQMKDSAKTLVSDCFLEFYSEFMMGYRVTPAVIKFMF
TGLINSSVTSPQSLMQACQVSSQQAMYNSVPLVTNTAFTLLRQQIFFNHVEDFIRRYGIL
TLGTLSPFGRLFVPTYSGLVSSAVALEDAEVIARAAQTLQMNSVSIQSSSLTTLDSLGRS
RTSSTAEDSSSVSDTTAASHDSGSSSSSFSFELNRPLSETELQFIKALSSLKSTQACEVI
QNRITGLYCNSNEGPLDRHNVIYSSRMADSCDWLKDGKRRGNLELANRIQSVLCILIAGY
YRSFGGEGTEKQVKASLNRDDNKIIEDPMIQLIPEKLRRELERLGVSRMEVDELMPSISP
DDTLAQLVAKKLISLNVSTEEYSAEVSRLKQTLTARNVLHGLAGGIKELSLPIYTIFMKS
YFFKDNVFLSLTDRWSTKHSTNYRDSCGKQLKGRIITKYTHWLDTFLGCSVSINRHTTVK
EPSLFNPNIRCVNLITFEDGLRELSVIQSHLKVFENEFTNLNLQFSDPNRQKLRIVESRP
AESELEANRAVIVKTKLFSATEQVRLSNNPAVVMGYLLDESAISEVKPTKVDFSNLLKDR
FKIMQFFPSVFTLIKMLTDESSDSEKSGLSPDLQQVARYSNHLTLLSRMIQQAKPTVTVF
YMLKGNLMNTEPTVAELVSYGIKEGRFFRLSDTGVDASTYSVKYWKILHCISAIGCLPLS
QADKSSLLMSFLNWRVNMDIRTSDCPLSSHEASILSEFDGQVIANILASELSSVKRDSER
EGLTDLLDYLNSPTELLKKKPYLGTTCKFNTWGDSNRSGKFTYSSRSGESIGIFIAGKLH
IHLSSESVALLCETERQVLSWMSKRRTEVITKEQHQLFLSLLPQSHECLQKHKDGSALSV
IPDSSNPRLLKFVPLKKGLAVVKIKKQILTVKKQVVFDAESEPRLQWGHGCLSIVYDETD
TQTTYHENLLKVKHLVDCSTDRKKLLPQSVFSDSKVVLSRIKFKTELLLNSLTLLHCFLK
HAPSDAIMEVESKSSLLHKYLKSGGVRQRNTEVLFREKLNKVVIKDNLEQGVEEEIEFCN
NLTKTVSENPLPLSCWSEVQNYIEDIGFNNVLVNIDRNTVKSELLWKFTLDTNVSTTSTI
KDVRTLVSYVSTETIPKFLLAFLLYEEVLMNLINQCKAVKELINSTGLSDLELESLLTLC
AFYFQSECSKRDGPRCSFAALLSLIHEDWQRIGKNILVRANNELGDVSLKVNIVLVPLKD
MSKPKSERVVMARRSLNHALSLMFLDEMSLPELKSLSVNCKMGNFEGQECFEFTILKDNS
ARLDYNKLIDHCVDMEKKREAVRAVEDLILMLTGRAVKPSAVTQFVHGDEQCQEQISLDD
LMANDTVTDFPDREAEALKTGNLGFNWDSD

Ligands and cofactors

IDNameFormulaCopies
MGMagnesium ionMg2
ZNZinc ionZn2

Primary citation

Structure of Crimean Congo hemorrhagic fever virus (CCHFV) L protein bound to 5' vRNA and nanobody 20096. Keown, J.R., Carrique, L., Grimes, J.M. To be published.

Other PDB entries of the same protein (UniProt Q6TQR6 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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