Structures


Crystal structure of the complete 3' untranslated region of the Turnip Yellow Mosaic Virus

Hartwick, E.W., Costantino, D.A., MacFadden, A. Nix, J.C., Tian, S,. Das, R., Kieft, J.S. (2018) Ribosome-induced RNA conformational changes in a viral 3'UTR sense and regulated translation levels. Nature Communications, 29, 5074

6MJ0

TYMV3'UTRforWeb

Crystal structure of an exonuclease-resistant RNA from the Dianthovirus

Steckelberg, A.-L., Akiyama, B.A., Costantino, D.A., Sit, T.A., Nix, J.C., & Kieft, J.S. (2018) A folded viral noncoding RNA blocks host cell exoribonucleases through a conformationally dynamic RNA structure. Proc. Natl. Acad. Sci., 115, 6404-6409

6D3P

DianthoStructureForWeb

Crystal structure of an Xrn1 resistant RNA from Zika Virus

Akiyama, B.M., Laurence, H.M., Massey, A.R., Costantino, D.A., Xie, X., Yang, Y., Shi, P-Y., Nix, J.C., Beckham, J.D., & Kieft, J.S. (2016) Zika virus produces non-coding RNAs using a multi-pseudoknot structure that confounds a cellular exonuclease. Science, 354, 1148-1152

5TPY

Zika_space filling

IRES bound to bacterial ribosome

*Colussi, T.M., *Costantino, D.A., Zhu, J., Donohue, J.P., Korostelev, A.A., Jaafar, Z.A., Plank, T-D.M., Noller, H.F., & Kieft, J.S. (2015) Initiation of translation in bacteria by a structured eukaryotic IRES RNA. Nature, 519: 110-113

4XEJ

ires-rna

Crystal structure of the tRNA-like structure from the 3' end of the Turnip Yellow Mosaic Virus

Colussi, T.M., Costantino, D.A., Hammond, J.A., Ruehle, G.M., Nix, J., & Kieft, J.S. (2014) The structural basis of transfer RNA mimicry and conformational plasticity by a viral RNA Nature, 511, p. 366-369.

4P5J

TurnipYellowMosaicVirus

Crystal structure of an Xrn1 resistant RNA from the flavivirus: Murray Valley Encephalitis

Chapman, E.G., Costantino, D.A., Rabe, J.L., Moon, S.L., Wilusz, J., Nix, J., & Kieft, J.S. (2014) The structural basis of pathogenic subgenomic flavivirus RNA (sfRNA) production. Science, 344, p. 307-310.

4PQV

MurrayValleyEncephalitis

Crystal structures of complex containing domain 3 from IGR IRES RNAs bound to the 70S ribosome

Zhu, J., Korostelev, A., Costantino, D.A., Donohue, J.P., Noller, H.F., & J.S. Kieft, Crystal structures of complexes containing domains from two viral internal ribosome entry site (IRES) RNAs bound to the 70S ribosome. Proc Natl Acad Sci U S A, 2011. 108(5): p. 1839-44.

CrPV(sm)

Cricket Paralysis virus domain 3 bound to sulfate or selenate

J. S. Kieft, E. Chase, D. A. Costantino and B. L. Golden, Identification and characterization of anion binding sites in RNA. RNA, 2010. 16(6): p. 1118-23.

3MJ3 (selenate structure #1)
3MJA (selenate structure #2)
3MJC (sulfate)

CricketParalysis(sm)

Phasing module development (variants of the ribonucleoprotein core of the Signal Recognition Particle

A. Y. Keel, R. P. Rambo, R. T. Batey and J. S. Kieft, A general strategy to solve the phase problem in RNA crystallography. Structure, 2007. 15(7): p. 761-72.

2PXD (Variant 1)
2PXB (Variant 2)
2PXE (Variant 4)
2PXF (Variant 5)
2PXV (Variant 6)
2PXK (Variant 8)
2PXL (Variant 9)
2PXP (Variant 13)
2PXQ (Variant 14)
2PXT (Variant 15)
2PXU (Variant 16)

PhasingModule(sm)

Crystal structure of the PSIV IGR IRES ribosome binding domain in the unbound form

Pfingsten, J.S., D.A. Costantino, and J.S. Kieft, Structural basis for ribosome recruitment and manipulation by a viral IRES RNA. Science, 2006. 314(5804): p. 1450-4.

2IL9

CrystalStructure(sm)

Crystal structure of a four-way junction from the HCV IRES RNA

J. S. Kieft, K. Zhou, A. Grech, R. Jubin and J. A. Doudna, Crystal structure of an RNA tertiary domain essential to HCV IRES-mediated translation initiation. Nat Struct Biol, 2002. 9(5): p. 370-4.

1KH6

CrystalStructure2(sm)

NMR structure of the P5B stem-loop from a group I intron bound to cobalt hexamine

Kieft, J.S. and I. Tinoco, Jr., Solution structure of a metal-binding site in the major groove of RNA complexed with cobalt (III) hexammine. Structure, 1997. 5(5): p. 713-21.

1AJF

NMR_Structure(sm)

Structures with our collaborators

CD147 Ig0 domain (E. Eisenmesser Lab, U.C. Denver)

3QR2 (wild-type)
3QQN (mutant)

Crystal structure of Schistosome eIF4E (R. Davis Lab, U.C. Denver)

3HXG (complexed with m7GpppG and 4E-BP)
3HXI (complexed with m7GpppA and 4E-BP)

Structural basis of chronic beryllium disease (Kappler Lab, National Jewish Hospital, Denver)

4P5K
4P5M
4P4K
4P4R
4P57

Large-scale movements of IF3 and tRNA during bacterial translation initiation (Venki Ramakrishnan Lab, MRC)

5LMN (state-1A) 5LMS (state-2C)
5LMO (state-1B) 5LMT (state-3)
5LMP (state-1C) 5LMU (state-4)
5LMQ (state-2A) 5LMV (state-III)
5LMR (state-2B)