Primary Citation PubMed: 22387466
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Redefining the PF06864 Pfam family based on Burkholderia pseudomallei PilO2(Bp) S-SAD crystal structure.
(2014) PLoS One 9
PubMed: 24728008 | PubMedCentral: PMC3984277 | DOI: 10.1371/journal.pone.0094981
However, a PDB search with the recently introduced PDBfam tool  recognizes 3VHJ as the only PDB structure matching the PF06864 Pfam family.
Second, using the function READALIGN of the ProFit program ( http://www.bioinf.org.uk/software/profit/index.html ) a superposition of the 3VHJ structure onto N-PilO2 Bp , based on the sequence alignment produced by our HMM profiles produced low RMSD values for the aligned part (3.6 Å using the Default profile, 3.2 Å using the EBI profile and 2.8 Å using the NCBI profile).
(Uniprot Id Q63JW5, structure presented in this work) and BfpC (UniProt Id B7UTD4, PDB Id 3VHJ) obtained with different approaches.
F. Superposition of the 3D structures of N-PilO2 Bp (cyan; PDB codes 4BYZ and 4BZ0) and N-BfpC (chocolate; PDB code 3VHJ).
Using Dali  , the closest structural homolog of N-PilO2 Bp was identified as the N-terminal domain of BfpC (Dali Z-score: 16.8, PDB Id 3VHJ, root-mean-square difference (RMSD) of 2.9 Å over 159 matched Cα pairs; hereafter N-BfpC), an accessory protein of the E. coli Tfpb BFP variant.
Publication Year: 2014
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