TABLE 6.

Comparison of the HP2 ORFs to those of HP1 and S2

GeneaPositionbProtein identity/similaritycPredicted function
HP2HP1
Integrase702-1712698-171197/97, 98/98Integrates phage into host chromosome to establish lysogeny
orf1(S)1715-24761698-23150/0, 100/100?
cI2671-32433061-363696/97, 95/97Maintains lysogeny by repressing pR promoters
orf2(S) cox3311-35713574-399339/59, 100/100Inhibits action of cI and competes with integrase (acts as excisionase)
orf53710-42104050-455393/94, 100/100?
orf64232-45974572-494098/98, 99/99?
orf74600-47824940-5125100/100, 100/100?
orf84797-50755137-5418100/100, 100/100?
orf95129-53865469-5729100/100, 100/100?
rep5338-77165732-805998/98Phage DNA polymerase
orf10(HP2)7731-80318071-837037/61?
dam8052-85679169-968798/98Dam methylase
orf148871-92699989-10390100/100?
orf1596411-1067510575-1179497/98Portal
orf1610668-1248811784-1360796/97Terminase
orf1712692-1358213826-1472291/93Scaffold
orf1813588-1459514726-1573696/97Capsid
orf1914618-1545415750-1659596/97Packaging
orf2015450-1589916588-1704090/94Packaging
orf21(HP2)15890-1637217028-1752867/79?
orf22(HP2)16323-1705717506-1818942/61?
orf2317332-1845918204-1933499/99Tail sheath
orf2418489-1891519338-19790100/100Tail tube
hol18987-1923819877-2011398/98Holin
lys19255-1979120106-2066695/96Lysis
orf2519799-2012320651-2099898/99?
orf2620319-2062421185-21493100/100?
orf2720816-2294221682-2375173/81?
orf2822949-2328123755-2409098/99?
orf2923398-2444324083-2526498/99?
orf3024456-2498025261-25785100/100?
orf3125007-2773625815-2859278/86Tail fibers
orf3227751-2838028604-2920691/96Tail collar
orf3328396-2916029239-3001597/98?
orf3429150-2970730002-3056594/96?
orf3529711-3130930562-3216396/98?
  • a ORFs with names not beginning in “orf” have experimental functions. Gene names that include “(S)” designate a gene novel to S2 which is also found in HP2. Gene names that include “(HP2)” designate a gene novel to HP2 and that has not been described in either HP1 or S2.

  • b The position numbers refer to the nucleotides composing the start-to-stop codons beginning with the first nucleotide of the phage chromosome as it is packaged in the bacteriophage head.

  • c Identity/similarity scores refer to the score of amino acid identity or similarity of the given ORF with scores of HP2 versus HP and HP2 versus S2 listed in italics.