The CoreMarketplace: CU Boulder - SIP (Shared Instruments Pool) in Biochemistry

SIP provides researchers with access to 40 + instruments and resources from basic research infrastructure to high-end, specialist biochemical and biophysical methods.

Biochemical and Biophysical Characterization:
Spectroscopy: Steady-state X-Band, CW-EPR, CD, fluorescence and UV/VIS
Fast kinetics: stopped-flow spectroscopy in CD, Fluorescence and UV/VIS mode, and chemical quench-flow analysis
Sizing and oligomerization: DLS, SEC-MALS, CG-MALS, Mass Photometry
Binding studies: ITC, MST, FP/Anisotropy (plate reader, cuvette-based, stopped-flow)
And more!

Basic Research Infrastructure
Multiple high-speed and ultra centrifuges and rotors
Sonicator, high-pressure fluidizer, mini-extruder
High-resolution, multimode laser imaging system; CCD-based gel and western imaging,
Autoclaves, lyophilizer, refractometer, liquid scintillation counters,…..

User Support
Consulting for project planning and experimental design
Hands-on instrument training, written step-by-step protocols, video tutorials
Support for experiment optimization and troubleshooting
Assistance with data analysis and evaluation

Facility Policies

Services are offerred outside of University of Colorado Boulder

Consulting is offerred outside of University of Colorado Boulder

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Services offered:

Facility Equipment

No additional equipment has been listed

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Publications

Publications associated with this facility (Click To View):

1.) Palacio M, Taatjes DJ (2025 Jan 6). Real-time visualization of reconstituted transcription reveals RNA polymerase II activation mechanisms at single promoters. bioRxiv : the preprint server for biology, (), . . PMID: 39829877.

2.) Baumer ZT, Newton MS, Löfstrand L, Carpio Paucar GN, Farny NG, Whitehead TA (2024 Dec 20). Engineered Stop and Go T7 RNA Polymerases. ACS synthetic biology, 13(12), 4165-4174. doi: 10.1021/acssynbio.4c00627. PMID: 39610115.

3.) Kibby EM, Robbins LK, Deep A, Min NK, Whalen LA, Nagy TA, Freeborn L, Corbett KD, Whiteley AT (2024 Dec 17). A bacterial NLR-related protein recognizes multiple unrelated phage triggers to sense infection bioRxiv, (), 2024.12.17.629029. . PMCID: 11702601.

4.) Aboulache BL, Hoitsma NM, Luger K (2024 Dec). Phosphorylation regulates the chromatin remodeler SMARCAD1 in nucleosome binding, ATP hydrolysis, and histone exchange. The Journal of biological chemistry, 300(12), 107893. . PMID: 39424143.

5.) Toner CM, Hoitsma NM, Weerawarana S, Luger K (2024 Oct 23). Characterization of Medusavirus encoded histones reveals nucleosome-like structures and a unique linker histone. Nature communications, 15(1), 9138. . PMID: 39443461.

6.) Kletzien OA, Wuttke DS, Batey RT (2024 Sep 15). The RNA-binding Selectivity of the RGG/RG Motifs of hnRNP U is Abolished by Elements Within the C-terminal Intrinsically Disordered Region. Journal of molecular biology, 436(18), 168702. . PMID: 38996909.

7.) Song J, Yao L, Gooding AR, Thron V, Kasinath V, Cech TR (2024 Aug 29). Diverse RNA Structures Induce PRC2 Dimerization and Inhibit Histone Methyltransferase Activity. bioRxiv : the preprint server for biology, (), . . PMID: 39257770.

8.) Johnson K, Seidel JM, Cech TR (2024 Aug 16). Small molecule telomerase inhibitors are also potent inhibitors of telomeric C-strand synthesis. RNA (New York, N.Y.), 30(9), 1213-1226. . PMID: 38918043.

9.) Hemphill WO, Steiner HR, Kominsky JR, Wuttke DS, Cech TR (2024 Jul 16). Transcription factors ERα and Sox2 have differing multiphasic DNA- and RNA-binding mechanisms. RNA (New York, N.Y.), 30(8), 1089-1105. . PMID: 38760076.

10.) Nguyen MC, Rostamian H, Raman A, Wei P, Becht DC, Erbse AH, Klein BJ, Gilbert TM, Zhang G, Blanco MA, Strahl BD, Taverna SD, Kutateladze TG (2024 Jun 24). Molecular insight into interactions between the Taf14, Yng1 and Sas3 subunits of the NuA3 complex. Nature communications, 15(1), 5335. . PMID: 38914563.

11.) Conte AN, Ridgeway SM, Ruchel ME, Kibby EM, Nagy TA, Whiteley AT (2024 Jun 4). Phage detection by a bacterial NLR-related protein is mediated by DnaJ bioRxiv, (), 2024.06.04.597415. . PMCID: 11185742.

12.) Zuccaro KE, Abriata LA, Pinto Meireles FT, Moss FR 3rd, Frost A, Dal Peraro M, Aydin H (2024 May 23). Cardiolipin clustering promotes mitochondrial membrane dynamics. bioRxiv : the preprint server for biology, (), . . PMID: 38826344.

13.) Kletzien OA, Wuttke DS, Batey RT (2024 May 11). The RNA-binding selectivity of the RGG/RG motifs of hnRNP U is abolished by elements within the intrinsically disordered region. bioRxiv : the preprint server for biology, (), . . PMID: 38766111.

14.) Hemphill WO, Steiner HR, Kominsky JR, Wuttke DS, Cech TR (2024 Mar 19). Transcription factors ERα and Sox2 have differing multiphasic DNA and RNA binding mechanisms. bioRxiv : the preprint server for biology, (), . . PMID: 38562825.

15.) Powell WC, Nahum M, Pankratz K, Herlory M, Greenwood J, Poliyenko D, Holland P, Jing R, Biggerstaff L, Stowell MHB, Walczak MA (2024 Mar 12). Post-Translational Modifications Control Phase Transitions of Tau. bioRxiv : the preprint server for biology, (), . . PMID: 38559065.

16.) Kletzien OA, Wuttke DS, Batey RT (2024 Feb 8). The RNA-Binding Domain of hnRNP U Extends beyond the RGG/RG Motifs. Biochemistry, (), . . PMID: 38329035.

17.) Muñoz-Escudero D, Breazeale SD, Lee M, Guan Z, Raetz CRH, Sousa MC (2023 Oct 17). Structure and Function of ArnD. A Deformylase Essential for Lipid A Modification with 4-Amino-4-deoxy-l-arabinose and Polymyxin Resistance. Biochemistry, 62(20), 2970-2981. . PMID: 37782650.

18.) Song J, Gooding AR, Hemphill WO, Love BD, Robertson A, Yao L, Zon LI, North TE, Kasinath V, Cech TR (2023 Sep 22). Structural basis for inactivation of PRC2 by G-quadruplex RNA. Science (New York, N.Y.), 381(6664), 1331-1337. doi: 10.1126/science.adh0059. PMID: 37733873.

19.) Kletzien OA, Wuttke DS, Batey RT (2023 Sep 20). The RNA-binding domain of hnRNP U extends beyond the RGG/RG motifs. bioRxiv : the preprint server for biology, (), . . PMID: 37786719.

20.) Bisirri EA, Wright TA, Schwartz DK, Kaar JL (2023 Sep 11). Tuning Polymer Composition Leads to Activity-Stability Tradeoff in Enzyme-Polymer Conjugates. Biomacromolecules, 24(9), 4033-4041. doi: 10.1021/acs.biomac.3c00396. PMID: 37610792.

21.) von der Malsburg A, Sapp GM, Zuccaro KE, von Appen A, Moss FR 3rd, Kalia R, Bennett JA, Abriata LA, Dal Peraro M, van der Laan M, Frost A, Aydin H (2023 Aug). Structural mechanism of mitochondrial membrane remodelling by human OPA1. Nature, 620(7976), 1101-1108. . PMID: 37612504.

22.) Tak U, Walth P, Whiteley AT (2023 Jul 24). Bacterial cGAS-like enzymes produce 2′,3′-cGAMP to activate an ion channel that restricts phage replication bioRxiv, (), 2023.07.24.550367. . PMCID: 10402079.

23.) Mitchell ME, Gatzeva-Topalova PZ, Bargmann AD, Sammakia T, Sousa MC (2023 Jul 18). Targeting the Conformational Change in ArnA Dehydrogenase for Selective Inhibition of Polymyxin Resistance. Biochemistry, 62(14), 2216-2227. . PMID: 37410993.

24.) Olson CL, Barbour AT, Wieser TA, Wuttke DS (2023 Jun 9). RPA engages telomeric G-quadruplexes more effectively than CST. Nucleic acids research, 51(10), 5073-5086. . PMID: 37140062.

25.) Kibby EM, Conte AN, Burroughs AM, Nagy TA, Vargas JA, Whalen LA, Aravind L, Whiteley AT (2023 May 8). Bacterial NLR-related proteins protect against phage Cell, 186(11), 2410-2424.e18. . PMCID: 10294775.

26.) Ledvina HE, Ye Q, Gu Y, Sullivan AE, Quan Y, Lau RK, Zhou H, Corbett KD, Whiteley AT (2023 Apr). An E1-E2 fusion protein primes antiviral immune signalling in bacteria. Nature, 616(7956), 319-325. . PMID: 36755092.

27.) Black HH, Hanson JL, Roberts JE, Leslie SN, Campodonico W, Ebmeier CC, Holling GA, Tay JW, Matthews AM, Ung E, Lau CI, Whiteley AM (2023 Mar 23). UBQLN2 restrains the domesticated retrotransposon PEG10 to maintain neuronal health in ALS. eLife, 12(), . . PMID: 36951542.

28.) Jansson-Fritzberg LI, Sousa CI, Smallegan MJ, Song JJ, Gooding AR, Kasinath V, Rinn JL, Cech TR (2023 Mar). DNMT1 inhibition by pUG-fold quadruplex RNA. RNA (New York, N.Y.), 29(3), 346-360. . PMID: 36574982.

29.) Fleming IR, Hannan JP, Swisher GH, Tesdahl CD, Martyr JG, Cordaro NJ, Erbse AH, Falke JJ (2023 Feb 15). Binding of active Ras and its mutants to the Ras binding domain of PI-3-kinase: A quantitative approach to K(D) measurements. Analytical biochemistry, 663(), 115019. . PMID: 36526022.

30.) Ledvina HE, Ye Q, Gu Y, Sullivan AE, Quan Y, Lau RK, Zhou H, Corbett KD, Whiteley AT (2023 Feb 8). An E1-E2 fusion protein primes antiviral immune signaling in bacteria Nature, 616(7956), 319-325. . PMCID: 10292035.

31.) Clements CM, Vögeli B, Shellman YG, Henen MA (2022 Dec). SAM1 domain of SASH1 harbors distinctive structural heterogeneity. Journal of structural biology, 214(4), 107914. . PMID: 36341956.

32.) Bennett JA, Steward LR, Rudolph J, Voss AP, Aydin H (2022 Dec). The structure of the human LACTB filament reveals the mechanisms of assembly and membrane binding. PLoS biology, 20(12), e3001899. . PMID: 36534696.

33.) Steiner HR, Lammer NC, Batey RT, Wuttke DS (2022 Nov 15). An Extended DNA Binding Domain of the Estrogen Receptor Alpha Directly Interacts with RNAs in Vitro. Biochemistry, 61(22), 2490-2494. . PMID: 36239332.

34.) Wieser TA, Wuttke DS (2022 Nov 15). Replication Protein A Utilizes Differential Engagement of Its DNA-Binding Domains to Bind Biologically Relevant ssDNAs in Diverse Binding Modes. Biochemistry, 61(22), 2592-2606. . PMID: 36278947.

35.) Hamilton DJ, Hein AE, Holmes ZE, Wuttke DS, Batey RT (2022 May 5). The DNA-Binding High-Mobility Group Box Domain of Sox Family Proteins Directly Interacts with RNA In Vitro. Biochemistry, (), . . PMID: 35511045.

36.) Rudolph J, Muthurajan UM, Palacio M, Mahadevan J, Roberts G, Erbse AH, Dyer PN, Luger K (2021 Dec 16). The BRCT domain of PARP1 binds intact DNA and mediates intrastrand transfer. Molecular cell, 81(24), 4994-5006.e5. . PMID: 34919819.

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Associations

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Metadata

Links

All the links listed resolve to this core profile

https://coremarketplace.org/?FacilityID=1038
https://coremarketplace.org/RRID:SCR_018986

Institution

Institution ROR ID: https://ror.org/02ttsq026

SciCrunch Data Imports (data maintained by https://scicrunch.org)

Keywords:

USEDit, spectroscopy, fluorescence spectroscopy, stopped flow spectroscopy, imaging, centrifuge, scintillation counter, sonicator, EPR, CD, DLS, ABRF, ABRF

Resource Type:

access service resource, core facility, service resource

Citation:

Colorado University at Boulder Biochemistry Shared Instruments Pool Core Facility (RRID:SCR_018986)

CU Boulder - SIP (Shared Instruments Pool) in Biochemistry

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Facility RRID

Facility Details

Facility Policies

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Services offered:

Facility Equipment

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Publications

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Associations

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Metadata

SciCrunch Data Imports (data maintained by https://scicrunch.org)

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Contact Annette Herta Erbse

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CU Boulder - SIP (Shared Instruments Pool) in Biochemistry

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