TABLE 2.

ORFs of the novel SCCmec and chromosome cassette CC6082 in JCSC6082

ORFValue for coding sequenceaGeneDescription of productData indicating homology to ORF in SCCmec or SCCmercury of
LocationbGene size (bp)Length (aa)85/2082WIS (JCSC3624)
% IdentitycCorresponding ORF(s) (size in bp)% IdentitycCorresponding ORF(s) (size in bp)
SCCmec
    Sw01135-614480159orfXConserved hypothetical protein OrfX99.4CZ080 (480)99.4V001 (480)
    Sw02860-1165306101Hypothetical protein100CZ078 (306)
    Sw031363-2226864287Hypothetical protein100CZ077 (870)
    Sw042334-38091476491Hypothetical protein100CZ076 (1500)19.1V011 (1989)
    Sw054036-51361101366Hypothetical protein100CZ075 (1101)77.1V012 (1110)
    Sw065129-5500372123Hypothetical protein100CZ074 (372)84.4V013 (369)
    Sw075497-71401644547Hypothetical protein100CZ073 (1644)82.1V014 (1644)
    Sw087365-90411677558ccrCCassette chromosome recombinase C99.9CZ072 (1544)93.6V015 (1623)
    Sw099144-9485342113Hypothetical protein100CZ070 (342)48.6V016 (339)
    Sw109581-9892312103Hypothetical protein100CZ069 (312)49.1V017 (327)
    Sw119908-10414507168Hypothetical protein100CZ068 (507)67.1V019 (504)
    Sw1210435-10881447148radCDNA repair protein RadC100CZ067 (318)
    Sw1311051-11923873290Hypothetical protein100CZ059 (873)
    Sw1411962-12270309102Hypothetical protein100CZ058 (309)
    Sw1512286-12774489162Hypothetical protein100CZ057 (489)
    Sw1612909-13436528175Hypothetical protein98.9CZ056 (528)
    Sw1713498-13941444147Membrane protein homologue99.3CZ055 (489)
    Sw1814505-14828324107Hypothetical protein100CZ053 (324)98.1V020 (567)
    Sw19(17134-14906)2229742hsdRTruncated type I restriction modification system endonuclease homologue100Z059 (2244)98.2V021 (3120)
    Sw20(17855-17181)675224tnpTransposase of IS431100, 99.6, 99.1, 99.1Z035 (675), Z041 (675), Z046 (675), Z058 (675)99.1, 97.8V003 (675), V008 (675)
    Sw2119157-19900744247Glycerophoshoryl diester phophodiesterase99.6CZ030 (744)99.6V004 (744)
    Sw2219997-20425429142MaoC domain protein homologue100CZ029 (429)100V005 (429)
    Sw23(22477-20471)2007668mecAPenicillin binding protein, PBP2′99.8Z030 (2007)99.7V006 (2007)
    Sw2422577-23575999332mecR1Truncated signal transducer protein MecR186.4CZ028 (114)80.9V007 (111)
    Sw25(24277-23603)675224tnpTransposase of IS431100, 100, 99.1, 98.6Z046 (675), Z058 (675), Z035 (674), Z041 (675)98.2, 97.8V003 (675), V008 (675)
    Sw2624321-24875555184Hypothetical protein, similar to glutathione synthase
    Sw27(25834-25403)432143tnpTruncated transposase IS1296 homologue
    Sw28(26236-25973)26487tnpTruncated transposase IS1296 homologue
    Sw29(26565-26287)27992tnpTruncated transposase homologue
    Sw30(26830-26534)29798tnpTruncated transposase IS3/IS911 homologue
CC6082
    Sw3127446-293111866621Hypothetical protein similar to reverse transcriptase
    Sw32(30451-29804)648125Membrane protein homologue
    Sw33(31197-30472)726241hsdMType I restriction modification system DNA methylase87.9V023 (1515)
    Sw3431369-32343975324Hypothetical protein
    Sw3532312-32884573190Hypothetical protein
  • a Nucleotide positions are determined based on nucleotide sequences deposited under DDBJ/EMBL/GenBank accession no. AB373032, AB037671, and AB121219, and they correspond to the 5′→3′ direction.

  • b Parentheses indicate complement.

  • c Identity of the amino acid sequence to each ORF.