Primary Citation PubMed: 15591044
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Crystal structure and RNA binding of the Rpb4/Rpb7 subunits of human RNA polymerase II.
(2005) Nucleic Acids Res 33
PubMed: 16282592 | PubMedCentral: PMC1283528 | DOI: 10.1093/nar/gki945
A similar superposition onto the higher resolution (2.3 Å) but less complete crystal structure of the isolated yeast heterodimer (PDB entry 1y14) results in 249 Cα atoms within 4 ... 2b; (rmsd 0.61 Å).
The secondary structure of the human protein determined using DSSP ( 33 ) is indicated above the sequences while secondary structural elements in the yeast (PDB entry 1y14) and M.jannaschii (PDB entry 1go3) proteins are indicated by boxes.
Publication Year: 2005
InterEvol database: exploring the structure and evolution of protein complex interfaces.
(2012) Nucleic Acids Res 40
PubMed: 22053089 | PubMedCentral: PMC3245184 | DOI: 10.1093/nar/gkr845
The interest of the InterEvol database is precisely to provide the structural solution to that question since the complex from S. cerevisiae (pdb:1y14) was identified as a structural interolog.
The example focuses on the Rpb4-Rpb7 complex crystallized in both H. sapiens (pdb code:2c35) and S. cerevisiae (pdb code:1y14).
The InterEvol PyMol plugin can be very helpful in revealing compensatory changes at interfaces in a complex such as the conserved Rpb4-Rpb7 interaction for which InterEvol identified 4 structural interologs including one in Homo sapiens (pdb: 2c35) and another from Saccharomyces cerevisiae (pdb: 1y14).
Publication Year: 2012
Versatility and invariance in the evolution of homologous heteromeric interfaces.
(2012) PLoS Comput Biol 8
PubMed: 22952442 | PubMedCentral: PMC3431345 | DOI: 10.1371/journal.pcbi.1002677
(B) Illustration of atomic contacts at interface (red links), on the example of two interologous interfaces sharing 33% minimum interface sequence identity, between subunits of RNA polymerase 2 in yea... t (upper complex, PDB id 1y14) and in human (lower complex, PDB id 2c35).
(A) Two interologous interfaces sharing 33%; minimum interface sequence identity, between subunits of RNA polymerase 2 in yeast (upper complex, PDB id 1y14) and in human (lower complex, PDB id 2c35); in this case, contact conservation between patches is 84%.
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