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. 2014 Jun;78(2):278–303. doi: 10.1128/MMBR.00049-13

FIG 8.

FIG 8

Genome architectures of single-stranded DNA viruses and homologous plasmids. All genomes are shown as linear diagrams, although most of them are circular ssDNAs, except for those of Parvoviridae, which are linear ssDNAs with terminal repeats. The colors of RCRE and S3H domains reflect homology; other colors were chosen arbitrarily. The background color code is light gray for the viruses and plasmids of prokaryotes, light pink for the viruses of animals, and light green for the viruses of plants. (A) The functions of the encoded proteins are as follows: A, replication initiation; B, internal scaffolding protein; C, ssDNA synthesis; D, external scaffolding protein; E, cell lysis; F, major capsid protein (JRC); G, major spike protein; H, minor spike protein; J, DNA binding. (B) The functions of the encoded proteins are as follows: g2, replication initiation; g5, genome replication; g7, g9, g8, g3, and g6, capsid proteins; g1 and g4, virion morphogenesis. (C) VP3 and VP4, viral proteins present in the lipoprotein coat of this capsidless virus of a haloarchaeon. (D) rep, replication protein, a fusion of the RCRE and S3H domains; cap, capsid protein, JRC fold. (E) REP (NS), replication-associated, nonstructural protein; CP (VP), capsid or virion protein, JRC fold. (F) C1:C2 (Rep), complementary strand-encoded replication proteins 1 and 2 (RCRE-S3H); V1 (CP) and V2 (MP), virion strand-encoded capsid and movement proteins, respectively. (G) M-Rep, master replication initiator protein (RCRE-S3H); CP, capsid protein; Clink, cell cycle regulator protein; MP, movement protein; NSP, nonstructural protein; U3, DNA U3-encoded protein. (H) CAT, chloramphenicol acetyltransferase (antibiotic resistance). (I) sipP, signal peptidase; rap, response regulator aspartyl phosphatase. (J) hp, hypothetical protein; mob, mobilization relaxase. (K) tra, protein involved in plasmid mobilization. (L) FtsK, ATPase involved in plasmid segregation, homolog of viral packaging ATPases; rep3, uncharacterized protein involved in plasmid replication; sipI, signal peptidase. (M) repA, replication protein A; ssb, ssDNA-binding protein; hp1 to -3, hypothetical proteins 1 to 3. (N) tnp1294, a transposase that possesses an RCRE domain. (O) CEHEL1, large protein encoded by Caenorhabditis elegans Helitron1 and possessing RCRE and superfamily 1 helicase (S1H) domains.