4KRE: Human Argonaute-1

Structure of Human Argonaute-1 bound to endogenous Sf9 RNA. Determined by X-ray diffraction at 1.75 Å resolution. Released 19 Jun 2013.

Method: X-ray diffraction
Resolution: 1.75 Å
Organisms: Homo sapiens, Spodoptera frugiperda
Chains: 2
Atoms: 7,179
Mol. weight: 103.89 kDa
Released: 19 Jun 2013

Explore 4KRE in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4KRE contains 39 α-helices and 53 β-strands across 1 chain. 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: 39 helices, 53 β-strands

Element	Residues	Length	Sheet
α-helix	22-24	3
β-strand	25	1	1
α-helix	26	1
β-strand	34-40	7	2
β-strand	42-46	5	3
β-strand	51-60	10	4
α-helix	66-79	14
β-strand	91-92	2	4
β-strand	97-100	4	4
β-strand	110-115	6	4
β-strand	125-137	13	4
α-helix	138-147	10
α-helix	154-171	18
β-strand	173-175	3	3
β-strand	178-180	3	3
β-strand	189-191	3	3
β-strand	194-206	13	3
β-strand	211-223	13	3
β-strand	227	1	5
α-helix	228-236	9
α-helix	247-249	3
α-helix	250-260	11
β-strand	264-267	4	5
β-strand	276-278	3	5
β-strand	279-286	8	6
β-strand	291-295	5	7
β-strand	301-305	5	7
α-helix	306-314	9
β-strand	324-328	5	6
β-strand	335-338	4	6
α-helix	339-341	3
β-strand	342-344	3	5
α-helix	345	1
β-strand	349	1	3
α-helix	353-355	3
α-helix	356-366	11
α-helix	370-384	15
α-helix	386-388	3
α-helix	390-394	5
β-strand	398-399	2	3
α-helix	403	1
β-strand	404-410	7	2
α-helix	411-415	5
β-strand	416-417	2	8
β-strand	419	1	9
β-strand	425-426	2	8
β-strand	429	1	10
β-strand	432	1	10
β-strand	439	1	9
β-strand	442	1	11
α-helix	443-445	3
β-strand	446	1	12
β-strand	449-453	5	13
α-helix	462-478	17
β-strand	483	1	12
β-strand	489-492	4	13
α-helix	496-498	3
α-helix	499-509	11
β-strand	515-520	6	13
α-helix	525-531	7
α-helix	532-538	7
β-strand	542-546	5	13
α-helix	547-551	5
α-helix	555-568	14
β-strand	572	1	11
β-strand	575-576	2	8
α-helix	578-580	3
α-helix	583-586	4
β-strand	589-597	9	2
α-helix	606-607	2
β-strand	608-615	8	2
β-strand	623-630	8	2
α-helix	640-655	16
β-strand	661-666	6	2
α-helix	669-670	2
α-helix	674-692	19
β-strand	699-706	8	2
β-strand	713-715	3	2
α-helix	718-720	3
β-strand	722	1	14
β-strand	727	1	14
α-helix	728-729	2
β-strand	732-734	3	2
β-strand	743	1	1
β-strand	745-749	5	2
β-strand	761-768	8	2
α-helix	774-784	11
β-strand	793	1	10
α-helix	799-814	16
α-helix	837-843	7
α-helix	845-847	3
α-helix	848-851	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Protein argonaute-1	A	protein	858	Homo sapiens	Q9UL18 (AlphaFold model)
RNA (5'-r(papapupapupupapapaapapapapapapapapapapa)-3')	R	RNA	20	Spodoptera frugiperda

Sequence of entity 1 (A), FASTA

>4KRE_1 Protein argonaute-1 (chains A)
AMEAGPSGAAAGAYLPPLQQVFQAPRRPGIGTVGKPIKLLANYFEVDIPKIDVYHYEVDI
KPDKCPRRVNREVVEYMVQHFKPQIFGDRKPVYDGKKNIYTVTALPIGNERVDFEVTIPG
EGKDRIFKVSIKWLAIVSWRMLHEALVSGQIPVPLESVQALDVAMRHLASMRYTPVGRSF
FSPPEGYYHPLGGGREVWFGFHQSVRPAMWKMMLNIDVSATAFYKAQPVIEFMCEVLDIR
NIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNVTRRPASHQTFPLQLESG
QTVECTVAQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQT
STMIKATARSAPDRQEEISRLMKNASYNLDPYIQEFGIKVKDDMTEVTGRVLPAPILQYG
GRNRAIATPNQGVWDMRGKQFYNGIEIKVWAIACFAPQKQCREEVLKNFTDQLRKISKDA
GMPIQGQPCFCKYAQGADSVEPMFRHLKNTYSGLQLIIVILPGKTPVYAEVKRVGDTLLG
MATQCVQVKNVVKTSPQTLSNLCLKINVKLGGINNILVPHQRSAVFQQPVIFLGADVTHP
PAGDGKKPSITAVVGSMDAHPSRYCATVRVQRPRQEIIEDLSYMVRELLIQFYKSTRFKP
TRIIFYRDGVPEGQLPQILHYELLAIRDACIKLEKDYQPGITYIVVQKRHHTRLFCADKN
ERIGKSGNIPAGTTVDTNITHPFEFDFYLCSHAGIQGTSRPSHYYVLWDDNRFTADELQI
LTYQLCHTYVRCTRSVSIPAPAYYARLVAFRARYHLVDKEHDSGEGSHISGQSNGRDPQA
LAKAVQVHQDTLRTMYFA

Sequence of entity 2 (R), FASTA

>4KRE_2 RNA (5'-R(P*AP*AP*UP*AP*UP*UP*AP*AP*A*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3') (chains R)
AAUAUUAAAAAAAAAAAAAA

Primary citation

The making of a slicer: activation of human argonaute-1. Faehnle, C.R., Elkayam, E., Haase, A.D. et al. Cell Rep (2013) 3:1901-1909. DOI 10.1016/j.celrep.2013.05.033 · PubMed

Other PDB entries of the same protein (UniProt Q9UL18 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4KRF 2.1 Å, Structure of Human Argonaute-1 let-7 complex
4KXT 2.29 Å, Structure of human ARGONAUTE1 in complex with guide RNA
1SI2 2.6 Å, Crystal structure of the PAZ domain of human eIF2c1 in complex with a 9-mer siRNA-like…
1SI3 2.6 Å, Crystal structure of the PAZ domain of human eIF2c1 in complex with a 9-mer siRNA-like…
5W6V 2.83 Å, The Structure of human Argonaute-1 in complex with the hook motif of human GW182
9Q3F 3.3 Å, Structure of neurodevelopmental mutant AGO1 F180del in complex with guide RNA
9Q3G 3.3 Å, Cryo-EM structure of human AGO1 in complex with guide RNA

Browse structure collections

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