Virtuelle (Nano) Welten PDB Molecule of the Month 98: Small Interfering RNA (siRNA)

Structure ID	Title	Authors	Publication Year	Journal Name	Volume ID	First Page	Pubmed
1JFZ	Crystallographic and modeling studies of RNase III suggest a mechanism for double-stranded RNA cleavage.	Blaszczyk, J., Tropea, J.E., Bubunenko, M., Routzahn, K.M., Waugh, D.S., Court, D.L., Ji, X.	2001	Structure	9	1225	11738048
1R9F	Recognition of small interfering RNA by a viral suppressor of RNA	Ye, K., Malinina, L., Patel, D.J.	2003	Nature	426	874	14661029
1RC5	Noncatalytic Assembly of Ribonuclease III with Double-Stranded RNA.	Blaszczyk, J., Gan, J., Tropea, J.E., Court, D.L., Waugh, D.S., Ji, X.	2004	Structure	12	457	15016361
1RC7	Noncatalytic Assembly of Ribonuclease III with Double-Stranded RNA.	Blaszczyk, J., Gan, J., Tropea, J.E., Court, D.L., Waugh, D.S., Ji, X.	2004	Structure	12	457	15016361
1RPU	Size selective recognition of siRNA by an RNA silencing suppressor	Vargason, J.M., Szittya, G., Burgyan, J., Hall, T.M.T.	2003	Cell (Cambridge,Mass.)	115	799	14697199
1SI2	Structural basis for overhang-specific small interfering RNA recognition by the PAZ domain.	Ma, J.B., Ye, K., Patel, D.J.	2004	Nature	429	318	15152257
1SI3	Structural basis for overhang-specific small interfering RNA recognition by the PAZ domain.	Ma, J.B., Ye, K., Patel, D.J.	2004	Nature	429	318	15152257
1VYN	Structure and nucleic-acid binding of the Drosophila Argonaute 2 PAZ domain.	Lingel, A., Simon, B., Izaurralde, E., Sattler, M.	2003	Nature	426	465	14615801
1W9H	Crystal structure of a PIWI protein suggests mechanisms for siRNA recognition and slicer activity.	Parker, J.S., Roe, S.M., Barford, D.	2004	Embo J.	23	4727	15565169
1YYK	Intermediate states of ribonuclease III in complex with double-stranded RNA	Gan, J., Tropea, J.E., Austin, B.P., Court, D.L., Waugh, D.S., Ji, X.	2005	Structure	13	1435	16216575
1YYO	Intermediate states of ribonuclease III in complex with double-stranded RNA	Gan, J., Tropea, J.E., Austin, B.P., Court, D.L., Waugh, D.S., Ji, X.	2005	Structure	13	1435	16216575
1YYW	Intermediate states of ribonuclease III in complex with double-stranded RNA	Gan, J., Tropea, J.E., Austin, B.P., Court, D.L., Waugh, D.S., Ji, X.	2005	Structure	13	1435	16216575
1YZ9	Intermediate states of ribonuclease III in complex with double-stranded RNA	Gan, J., Tropea, J.E., Austin, B.P., Court, D.L., Waugh, D.S., Ji, X.	2005	Structure	13	1435	16216575
1Z25	Purified Argonaute2 and an siRNA form recombinant human RISC.	Rivas, F.V., Tolia, N.H., Song, J.J., Aragon, J.P., Liu, J., Hannon, G.J., Joshua-Tor, L.	2005	Nat.Struct.Mol.Biol.	12	340	15800637
1Z26	Purified Argonaute2 and an siRNA form recombinant human RISC.	Rivas, F.V., Tolia, N.H., Song, J.J., Aragon, J.P., Liu, J., Hannon, G.J., Joshua-Tor, L.	2005	Nat.Struct.Mol.Biol.	12	340	15800637
1ZBH	Structural basis for 3'-end specific recognition of histone mRNA stem-loop by 3'-exonuclease, a human nuclease that also targets siRNA	Cheng, Y., Patel, D.J.	n/a	To be Published	n/a	n/a	n/a
1ZBU	Structural basis for 3'-end specific recognition of histone mRNA stem-loop by 3'-exonuclease, a human nuclease that also targets siRNA	Cheng, Y., Patel, D.J.	n/a	To be Published	n/a	n/a	n/a
2B9Z	The structure of the flock house virus B2 protein, a viral suppressor of RNA interference, shows a novel mode of double-stranded RNA recognition.	Lingel, A., Simon, B., Izaurralde, E., Sattler, M.	2005	Embo Rep.	6	1149	16270100
2BGG	Structural insights into mRNA recognition from a PIWI domain-siRNA guide complex.	Parker, J.S., Roe, S.M., Barford, D.	2005	Nature	434	663	15800628
2EZ6	Structural Insight into the Mechanism of Double-Stranded RNA Processing by Ribonuclease III.	Gan, J., Tropea, J.E., Austin, B.P., Court, D.L., Waugh, D.S., Ji, X.	2006	Cell (Cambridge,Mass.)	124	355	16439209
2F8S	A Potential Protein-RNA Recognition Event along the RISC-Loading Pathway from the Structure of A. aeolicus Argonaute with Externally Bound siRNA.	Yuan, Y.R., Pei, Y., Chen, H.Y., Tuschl, T., Patel, D.J.	2006	Structure	14	1557	17027504
2F8T	A Potential Protein-RNA Recognition Event along the RISC-Loading Pathway from the Structure of A. aeolicus Argonaute with Externally Bound siRNA.	Yuan, Y.R., Pei, Y., Chen, H.Y., Tuschl, T., Patel, D.J.	2006	Structure	14	1557	17027504
2FFL	Structural Basis of Double-Stranded RNA Processing by Dicer	MacRae, I.J., Zhou, K., Li, F., Repic, A., Brooks, A.N., Cande, W.Z., Adams, P.D., Doudna, J.A.	2006	Science	311	195	16410517
2G92	Structure and Gene Silencing Activity of siRNAs with a Ribo-difluorotoluyl Nucleotide	Xia, J., Noronha, A., Toudjarska, I., Li, F., Akinc, A., Braich, R., Frank-Kamenetsky, M., Rajeev, K.G., Egli, M., Manoharan, M.	2006	ACS CHEM.BIOL.	n/a	n/a	-1
2NUE	A stepwise model for double-stranded RNA processing by ribonuclease III.	Gan, J., Shaw, G., Tropea, J.E., Waugh, D.S., Court, D.L., Ji, X.	2007	Mol.Microbiol.	67	143	18047582
2NUF	A stepwise model for double-stranded RNA processing by ribonuclease III.	Gan, J., Shaw, G., Tropea, J.E., Waugh, D.S., Court, D.L., Ji, X.	2007	Mol.Microbiol.	67	143	18047582
2NUG	A stepwise model for double-stranded RNA processing by ribonuclease III.	Gan, J., Shaw, G., Tropea, J.E., Waugh, D.S., Court, D.L., Ji, X.	2007	Mol.Microbiol.	67	143	18047582

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Small Interfering RNA (siRNA)

A list of 'Small Interfering RNA' related entries in the PDB