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| PROSITE documentation PDOC51905 [for PROSITE entry PS51905] |
Zinc finger UBZ1-, UBZ2-, UBZ3-, and UBZ4-type profiles
The ubiquitin-binding zinc finger (UBZ) is a type of zinc-coordinating β-β-α fold domain found mainly in proteins involved in DNA repair and transcriptional regulation. UBZ domains coordinate a zinc ion with cysteine or histidine residues; depending on their amino acid sequence, UBZ domains are classified into several families [1,2]. Type 1 UBZs are CCHH-type zinc fingers found in tandem UBZ domains of TAX1-binding protein 1 (TAX1BP1) [3,4,5], type 2 UBZs are CCHC-type zinc fingers found in FAAP20 which is a subunit of the Fanconi anemia (FA) core complex [6,7], type 3 UBZs are CCHH-type zinc fingers found only in the Y-family translesion polymerase eta [8,9,10], and type 4 UBZs are CCHC-type zinc fingers found in Y-family translesion polymerase kappa, Werner helicase-interacting protein 1 (WRNIP1), and Rad18 [11,12,13].
The UBZ domain consists of two short antiparallel β-strands followed by one α-helix. The α-helix packs against the β-strands with a zinc ion sandwiched between the α-helix and the β-strands. The zinc ion is coordinated by two cysteines located on the fingertip formed by the β-strands and two histidines (see <PDB:4BMJ>) [1,8] or one hisidine and one cysteine (see <PDB:2MUQ>) [6] on the α-helix [2].
The profiles we developed cover the entire UBZ1-, UBZ2-, UBZ3-, and UBZ4-type zinc fingers.
Last update:September 2019 / First entry.
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PROSITE methods (with tools and information) covered by this documentation:
| 1 | Authors | Hofmann K. |
| Title | Ubiquitin-binding domains and their role in the DNA damage response. | |
| Source | DNA Repair. (Amst). 8:544-556(2009). | |
| PubMed ID | 19213613 | |
| DOI | 10.1016/j.dnarep.2009.01.003 |
| 2 | Authors | Suzuki N. Rohaim A. Kato R. Dikic I. Wakatsuki S. Kawasaki M. |
| Title | A novel mode of ubiquitin recognition by the ubiquitin-binding zinc finger domain of WRNIP1. | |
| Source | FEBS. J. 283:2004-2017(2016). | |
| PubMed ID | 27062441 | |
| DOI | 10.1111/febs.13734 |
| 3 | Authors | Ceregido M.A. Spinola Amilibia M. Buts L. Rivera-Torres J. Garcia-Pino A. Bravo J. van Nuland N.A.J. |
| Title | The structure of TAX1BP1 UBZ1+2 provides insight into target specificity and adaptability. | |
| Source | J. Mol. Biol. 426:674-690(2014). | |
| PubMed ID | 24239949 | |
| DOI | 10.1016/j.jmb.2013.11.006 |
| 4 | Authors | Xie X. Li F. Wang Y. Wang Y. Lin Z. Cheng X. Liu J. Chen C. Pan L. |
| Title | Molecular basis of ubiquitin recognition by the autophagy receptor CALCOCO2. | |
| Source | Autophagy 11:1775-1789(2015). | |
| PubMed ID | 26506893 | |
| DOI | 10.1080/15548627.2015.1082025 |
| 5 | Authors | Thurston T.L.M. Boyle K.B. Allen M. Ravenhill B.J. Karpiyevich M. Bloor S. Kaul A. Noad J. Foeglein A. Matthews S.A. Komander D. Bycroft M. Randow F. |
| Title | Recruitment of TBK1 to cytosol-invading Salmonella induces WIPI2-dependent antibacterial autophagy. | |
| Source | EMBO. J. 35:1779-1792(2016). | |
| PubMed ID | 27370208 | |
| DOI | 10.15252/embj.201694491 |
| 6 | Authors | Wojtaszek J.L. Wang S. Kim H. Wu Q. D'Andrea A.D. Zhou P. |
| Title | Ubiquitin recognition by FAAP20 expands the complex interface beyond the canonical UBZ domain. | |
| Source | Nucleic. Acids. Res. 42:13997-14005(2014). | |
| PubMed ID | 25414354 | |
| DOI | 10.1093/nar/gku1153 |
| 7 | Authors | Toma A. Takahashi T.S. Sato Y. Yamagata A. Goto-Ito S. Nakada S. Fukuto A. Horikoshi Y. Tashiro S. Fukai S. |
| Title | Structural basis for ubiquitin recognition by ubiquitin-binding zinc finger of FAAP20. | |
| Source | PLoS One. 10:E0120887-E0120887(2015). | |
| PubMed ID | 25799058 | |
| DOI | 10.1371/journal.pone.0120887 |
| 8 | Authors | Bomar M.G. Pai M.-T. Tzeng S.-R. Li S.S.-C. Zhou P. |
| Title | Structure of the ubiquitin-binding zinc finger domain of human DNA Y-polymerase eta. | |
| Source | EMBO. Rep. 8:247-251(2007). | |
| PubMed ID | 17304240 | |
| DOI | 10.1038/sj.embor.7400901 |
| 9 | Authors | Garcia-Ortiz M.V. Roldan-Arjona T. Ariza R.R. |
| Title | The noncatalytic C-terminus of AtPOLK Y-family DNA polymerase affects synthesis fidelity, mismatch extension and translesion replication. | |
| Source | FEBS. J. 274:3340-3350(2007). | |
| PubMed ID | 17550419 | |
| DOI | 10.1111/j.1742-4658.2007.05868.x |
| 10 | Authors | Woodruff R.V. Bomar M.G. D'Souza S. Zhou P. Walker G.C. |
| Title | The unusual UBZ domain of Saccharomyces cerevisiae polymerase eta. | |
| Source | DNA Repair. (Amst). 9:1130-1141(2010). | |
| PubMed ID | 20837403 | |
| DOI | 10.1016/j.dnarep.2010.08.001 |
| 11 | Authors | Yang K. Moldovan G.-L. D'Andrea A.D. |
| Title | RAD18-dependent recruitment of SNM1A to DNA repair complexes by a ubiquitin-binding zinc finger. | |
| Source | J. Biol. Chem. 285:19085-19091(2010). | |
| PubMed ID | 20385554 | |
| DOI | 10.1074/jbc.M109.100032 |
| 12 | Authors | Rizzo A.A. Salerno P.E. Bezsonova I. Korzhnev D.M. |
| Title | NMR structure of the human Rad18 zinc finger in complex with ubiquitin defines a class of UBZ domains in proteins linked to the DNA damage response. | |
| Source | Biochemistry 53:5895-5906(2014). | |
| PubMed ID | 25162118 | |
| DOI | 10.1021/bi500823h |
| 13 | Authors | Lachaud C. Castor D. Hain K. Munoz I. Wilson J. MacArtney T.J. Schindler D. Rouse J. |
| Title | Distinct functional roles for the two SLX4 ubiquitin-binding UBZ domains mutated in Fanconi anemia. | |
| Source | J. Cell. Sci. 127:2811-2817(2014). | |
| PubMed ID | 24794496 | |
| DOI | 10.1242/jcs.146167 |
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