Selected article for: "PDB code and sequence identity"
Author: Tan, Jinzhi; Vonrhein, Clemens; Smart, Oliver S.; Bricogne, Gerard; Bollati, Michela; Kusov, Yuri; Hansen, Guido; Mesters, Jeroen R.; Schmidt, Christian L.; Hilgenfeld, Rolf
Title: The SARS-Unique Domain (SUD) of SARS Coronavirus Contains Two Macrodomains That Bind G-Quadruplexes
  • Document date: 2009_5_15
    • ID: 1aqt65cc_13
    Snippet: Each of the SUD core subdomains is related to the macrodomain of the histone macro2A ( [18] ; PDB code 1ZR3, molecule C; for SUD-N: Z-score 9.8, r.m.s.d. 2.5 Ã… for 112 out of 184 Ca atoms, 12% sequence identity; for SUD-M: Z-score 8.6, r.m.s.d. 2.8 Ã… for 115 out of 184 Ca atoms, 19% sequence identity). Called ''Xdomains'', single macrodomains are also found in alphaviruses, in hepatitis E virus, and in rubella virus, in addition to coronaviruse.....
    Document: Each of the SUD core subdomains is related to the macrodomain of the histone macro2A ( [18] ; PDB code 1ZR3, molecule C; for SUD-N: Z-score 9.8, r.m.s.d. 2.5 Ã… for 112 out of 184 Ca atoms, 12% sequence identity; for SUD-M: Z-score 8.6, r.m.s.d. 2.8 Ã… for 115 out of 184 Ca atoms, 19% sequence identity). Called ''Xdomains'', single macrodomains are also found in alphaviruses, in hepatitis E virus, and in rubella virus, in addition to coronaviruses [27, 28] . The SARS-CoV X-domain (Nsp3b), the domain immediately preceding the SUD in Nsp3, shares no recognizable sequence identity with SUD-N (12%) or SUD-M (7%) ( Figure 2C ), but its three-dimensional structure [22, 23] (PDB code 2ACF, chain A) can be superimposed onto each of the two SUD subdomains with an r.m.s.d. (based on Ca atoms) of 2.7 Ã… and 2.3 Ã… , respectively ( Figure 2D ). Thus, within Nsp3, SARS-CoV has three macrodomains aligned one after the other.

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