5XWP: LbuCas13a-crRNA-target RNA ternary complex

Crystal structure of LbuCas13a-crRNA-target RNA ternary complex. Determined by X-ray diffraction at 3.09 Å resolution. Released 13 Sept 2017.

Method
X-ray diffraction
Resolution
3.09 Å
Organisms
Leptotrichia buccalis, synthetic construct
Chains
6
Atoms
21,838
Mol. weight
336.35 kDa
Released
13 Sept 2017

Explore 5XWP in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5XWP contains 136 α-helices and 46 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: 67 helices, 22 β-strands

ElementResiduesLengthSheet
β-strand9-1351
β-strand18-2251
α-helix30-378
β-strand40-4122
α-helix42-454
α-helix55-6814
β-strand71-7552
β-strand80-8452
α-helix107-1093
α-helix110-1178
α-helix125-1306
α-helix131-14919
β-strand155-15843
β-strand165-16843
α-helix171-1788
α-helix182-1843
α-helix185-19915
α-helix202-21312
α-helix221-23010
α-helix233-2353
α-helix236-2405
α-helix241-25010
α-helix254-2607
α-helix266-2727
α-helix273-2775
α-helix285-30319
α-helix304-3096
α-helix320-3245
α-helix326-35429
β-strand36013
α-helix363-37816
α-helix380-39314
β-strand409-41134
β-strand419-42134
α-helix424-4307
α-helix434-44411
α-helix454-47522
α-helix484-4863
α-helix497-50610
α-helix509-52214
α-helix531-5388
β-strand54215
α-helix553-5553
α-helix556-5616
α-helix563-5697
α-helix582-59918
α-helix600-6045
α-helix605-6084
α-helix614-62815
α-helix651-66515
α-helix676-69520
α-helix699-7035
α-helix708-7147
α-helix717-73115
α-helix734-7374
α-helix738-7469
β-strand74815
α-helix751-7555
α-helix757-76812
α-helix771-78717
α-helix794-80310
α-helix818-8225
β-strand825-82626
β-strand82717
β-strand83017
α-helix835-8417
β-strand84818
β-strand85318
α-helix857-8659
α-helix868-8769
β-strand882-88326
α-helix884-89411
α-helix897-91216
α-helix922-94625
α-helix948-98235
α-helix987-9937
α-helix997-9993
α-helix1008-101912
α-helix1032-104110
α-helix1046-10527
α-helix1064-107411
α-helix1079-10824
α-helix1085-109612
β-strand1098-110479
β-strand1110-111789
β-strand1119-1122410
α-helix1129-11302
β-strand1131-1134410
α-helix1138-114912
Chain B: 69 helices, 24 β-strands
ElementResiduesLengthSheet
β-strand10-13411
β-strand18-21411
β-strand22112
β-strand25112
α-helix30-367
β-strand40-41213
α-helix43-453
α-helix55-7016
β-strand71-76613
β-strand79-84613
α-helix110-1189
α-helix124-1274
α-helix128-1303
α-helix131-15020
β-strand155-160614
β-strand163-168614
α-helix171-1788
α-helix182-1843
α-helix185-19915
α-helix204-21310
α-helix220-23011
α-helix233-2342
α-helix235-2406
α-helix241-25010
α-helix254-2607
α-helix266-2727
α-helix273-2775
α-helix285-30319
α-helix304-3107
α-helix326-35429
β-strand360114
α-helix363-37816
α-helix380-39314
β-strand409-411315
β-strand419-421315
α-helix427-4304
α-helix434-44411
α-helix454-47522
α-helix484-4896
α-helix497-50610
α-helix509-52214
α-helix531-54010
β-strand543116
α-helix547-5493
α-helix553-5553
α-helix556-5594
α-helix563-5708
α-helix582-59918
α-helix600-6045
α-helix605-6095
α-helix615-63016
α-helix652-66514
α-helix677-69418
α-helix700-7023
α-helix708-7136
α-helix717-73115
α-helix735-7373
α-helix738-7458
β-strand749116
α-helix757-76610
α-helix771-78818
α-helix794-80310
α-helix818-8214
α-helix822-8243
β-strand825-826217
β-strand827118
β-strand830118
α-helix835-8417
β-strand848119
β-strand853119
α-helix857-8659
α-helix868-87811
β-strand882-883217
α-helix884-8929
α-helix897-91216
α-helix917-9193
α-helix922-94524
α-helix948-98235
α-helix988-9936
α-helix1008-101912
α-helix1025-10306
α-helix1032-104110
α-helix1044-10463
α-helix1047-10537
α-helix1056-10594
α-helix1064-107411
α-helix1079-109618
β-strand1098-1104720
β-strand1110-1117820
β-strand1119-1122421
α-helix11301
β-strand1131-1134421
α-helix1138-114811

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Uncharacterized proteinA, Bprotein1160Leptotrichia buccalisC7NBY4 (AlphaFold model)
RNA (59-mer)C, ERNA59synthetic construct
RNA (30-mer)D, FRNA30synthetic construct
Sequence of entity 1 (A, B), FASTA
>5XWP_1 Uncharacterized protein (chains A, B)
SMKVTKVGGISHKKYTSEGRLVKSESEENRTDERLSALLNMRLDMYIKNPSSTETKENQK
RIGKLKKFFSNKMVYLKDNTLSLKNGKKENIDREYSETDILESDVRDKKNFAVLKKIYLN
ENVNSEELEVFRNDIKKKLNKINSLKYSFEKNKANYQKINENNIEKVEGKSKRNIIYDYY
RESAKRDAYVSNVKEAFDKLYKEEDIAKLVLEIENLTKLEKYKIREFYHEIIGRKNDKEN
FAKIIYEEIQNVNNMKELIEKVPDMSELKKSQVFYKYYLDKEELNDKNIKYAFCHFVEIE
MSQLLKNYVYKRLSNISNDKIKRIFEYQNLKKLIENKLLNKLDTYVRNCGKYNYYLQDGE
IATSDFIARNRQNEAFLRNIIGVSSVAYFSLRNILETENENDITGRMRGKTVKNNKGEEK
YVSGEVDKIYNENKKNEVKENLKMFYSYDFNMDNKNEIEDFFANIDEAISSIRHGIVHFN
LELEGKDIFAFKNIAPSEISKKMFQNEINEKKLKLKIFRQLNSANVFRYLEKYKILNYLK
RTRFEFVNKNIPFVPSFTKLYSRIDDLKNSLGIYWKTPKTNDDNKTKEIIDAQIYLLKNI
YYGEFLNYFMSNNGNFFEISKEIIELNKNDKRNLKTGFYKLQKFEDIQEKIPKEYLANIQ
SLYMINAGNQDEEEKDTYIDFIQKIFLKGFMTYLANNGRLSLIYIGSDEETNTSLAEKKQ
EFDKFLKKYEQNNNIKIPYEINEFLREIKLGNILKYTERLNMFYLILKLLNHKELTNLKG
SLEKYQSANKEEAFSDQLELINLLNLDNNRVTEDFELEADEIGKFLDFNGNKVKDNKELK
KFDTNKIYFDGENIIKHRAFYNIKKYGMLNLLEKIADKAGYKISIEELKKYSNKKNEIEK
NHKMQENLHRKYARPRKDEKFTDEDYESYKQAIENIEEYTHLKNKVEFNELNLLQGLLLR
ILHRLVGYTSIWERDLRFRLKGEFPENQYIEEIFNFENKKNVKYKGGQIVEKYIKFYKEL
HQNDEVKINKYSSANIKVLKQEKKDLYIANYIAAFNYIPHAEISLLEVLENLRKLLSYDR
KLKNAVMKSVVDILKEYGFVATFKIGADKKIGIQTLESEKIVHLKNLKKKKLMTDRNSEE
LCKLVKIMFEYKMEEKKSEN
Sequence of entity 2 (C, E), FASTA
>5XWP_2 RNA (59-MER) (chains C, E)
GGACCACCCCAAAAAUGAAGGGGACUAAAACACAAAUCUAUCUGAAUAAACUCUUCUUC
Sequence of entity 3 (D, F), FASTA
>5XWP_3 RNA (30-MER) (chains D, F)
GGAAGAAGAGUUUAUUCAGAUAGAUUUGUC

Primary citation

The Molecular Architecture for RNA-Guided RNA Cleavage by Cas13a. Liu, L., Li, X., Ma, J. et al. Cell (2017) 170:714-726.e10. DOI 10.1016/j.cell.2017.06.050 · PubMed

Other PDB entries of the same protein (UniProt C7NBY4 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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