Table 1 Genes (and genome feature) common to all DU1-like duplications (DU1-Pasteur, -Birhaug, -China and -Danish and the DU1-like triplication identified in the clinical isolate BCG 3281)

Rv3921c (BCG3979c)

Probable conserved transmembrane protein

cell wall and cell processes

Rv3922c (BCG3980c)

Possible hemolysin

virulence, detoxification, adaptation

rnpA

Ribonuclease P protein component RnpA or RNaseP. RNaseP catalyzes the removal of the 5′-leader sequence from PRE-tRNA to produce the mature 5′ terminus. It can also cleave other RNA substrates such as 4.5S RNA. The protein component plays an auxiliary but essential role in vivo by binding to the 5′-leader sequence and broadening the substrate specificity of the ribozyme.

information pathways

rpmH

50S ribosomal protein L34 RpmH. Involved in translation mechanism. This protein is one of the early assembly proteins of the 50S ribosomal subunit.

information pathways

dnaA

Chromosomal replication initiator protein DnaA. Plays an important role in the initiation and regulation of chromosomal replication. Binds to the oriC; it binds specifically dsDNA at a 9 bp consensus (DnaA box): 5′-TTATC(C/A)A(C/A)A-3′. DnaA binds the oriC, ATP and ADP,acidic phospholipids and exhibited weak ATPase activity.

information pathways

oriC

Sequence in the genome at which replication is initiated. Contains non-overlapping MtrA- and DnaA-binding boxes. Is located in the dnaA-dnaN genomic region [35].

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dnaN

DNA polymerase III (β-chain) DnaN (DNA nucleotidyltransferase). DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3′ to 5′ exonuclease activity. The β-chain is required for initiation of replication. Once it is clamped onto DNA, it slides freely (bidirectionally and ATP-independently) along duplex DNA.

information pathways

recF

DNA replication and repair protein RecF (ssDNA binding protein) is involved in DNA metabolism and recombination; it is required for DNA replication and normal SOS inducibility. Binds preferentially to linear ssDNA. It also seems to bind ATP.

information pathways