Primary Citation PubMed: 11350033
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UPF201 archaeal specific family members reveal structural similarity to RNA-binding proteins but low likelihood for RNA-binding function.
(2008) PLoS One 3
PubMed: 19079550 | PubMedCentral: PMC2596488 | DOI: 10.1371/journal.pone.0003903
Chain A of 10077a most closely resembles various extant structures of L5, including those from Bacillus sterothermophilus  (BstL5: PDB Code 1IQ4, Z-score = ... .3, Sequence Identity = 14%, r.m.s.d. = 2.6 Å for 113 equivalent Cα pairs), Thermus thermophilus  (TtL5: PDB Code 1MJI, Z-score = 8.7, Sequence Identity = 14%, r.m.s.d. = 2.8 Å for 113 equivalent Cα pairs), Haloarcula marismortui  ,  (HmaL5: PDB Code 1JJ2, Z-score = 7.7, Sequence Identity = 16%, r.m.s.d. = 2.4 Å for 96 equivalent Cα pairs), and E. coli  ,  (EcolL5: PDB ID 2AWB, Z-score = 5.6, Sequence Identity = 8%, r.m.s.d. = 3.6 Å for 108 equivalent Cα pairs).
g004 Figure 4 Electrostatic potential surfaces of a) UPF0201 proteins and selected b) L5 (PDB Code: 1IQ4 (BstL5), 1MJI (TtL5), 1JJ2 (HmaL5) and 2AWB (EcolL5) and c) non-L5 (PDB Code: 1OIA (U1ARNP), 2G0C (YxIN)) RRM homologs.
Since all the four proteins (10077a–d) involved in this study belong to thermostable class of proteins, we analyzed the probable reasons for thermal stability using their structures along with a few other structures (1IQ4, 1MJI, 1JJ2 and 2AWB) available in the Protein data Bank ( Table 2 ).
Publication Year: 2008
Expression, purification and structural analysis of the Pyrococcus abyssi RNA binding protein PAB1135.
(2010) BMC Res Notes 3
PubMed: 20380716 | PubMedCentral: PMC2872656 | DOI: 10.1186/1756-0500-3-97
The model was used in a DALI search for structural neighbors, yielding a list that was topped by four UPF0201 Archaea structures followed by 1IQ4 and 1JJ2 , all with Z score above 7.
Publication Year: 2010
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