From: GenBank-Updates@net.bio.net
Newsgroups: bionet.molbio.genbank.updates
Subject: Bacteriophage P22 eaA - eaI genes, complete cds.
Date: 21 Dec 92 20:50:26 GMT
Distribution: bionet
Checksum: 36473 19

LOCUS       P22INTEA     5960 bp ds-DNA             PHG       18-NOV-1992
DEFINITION  Bacteriophage P22 eaA - eaI genes, complete cds.
ACCESSION   L06296
KEYWORDS    eaA gene; eaC gene; eaD gene; eaE gene; eaF gene; eaG gene;
            eaI gene.
SOURCE      Bacteriophage P22 DNA.
  ORGANISM  Bacteriophage P22
            Viridae; ds-DNA nonenveloped viruses; Podoviridae.
REFERENCE   1  (bases 1 to 5960)
  AUTHORS   Youderian,P. and Susskind,M.Dr..
  TITLE     Bacteriophage P22 proteins specified by the region between genes 9
            and erf
  JOURNAL   Virology 107, 270-282 (1980)
  STANDARD  full automatic
REFERENCE   2  (bases 1 to 5960)
  AUTHORS   Stormo,G.D., Schneider,T.D. and Gold,L.M.
  TITLE     Characterization of translational initiation sites in E. coli
  JOURNAL   Nucleic Acids Res. 10, 2971-2996 (1982)
  STANDARD  full automatic
REFERENCE   3  (bases 1 to 5960)
  AUTHORS   Stormo,G.D., Schneider,T.D., Gold,L.M. and Ehrenfeucht,A.
  TITLE     Use of the 'Perceptron' algorithm to distinguish translation sites
            in E. coli
  JOURNAL   Nucleic Acids Res. 10, 2997-3011 (1982)
  STANDARD  full automatic
REFERENCE   4  (bases 1 to 5960)
  AUTHORS   Benedik,M.J., Mascarenhas,D. and Campbell,A.
  TITLE     The integrase promoter and t1' terminator in bacteriophages lambda
            and 434
  JOURNAL   Virology 126, 658-668 (1983)
  STANDARD  full automatic
REFERENCE   5  (bases 1 to 5960)
  AUTHORS   Leong,J.M., Nunes-Dueby,S.E., Oser,A.B., Lesser,C.F., Youderian,P.,
            Susskind,M.M. and Landy,A.
  TITLE     Structural and regulatory divergence among site-specific
            recombination genes of lambdoid phage
  JOURNAL   J. Mol. Biol. 189, 603-616 (1986)
  STANDARD  full automatic
REFERENCE   6  (bases 1 to 5960)
  AUTHORS   Murphy,K.C., Fenton,A.C. and Poteete,A.R.
  TITLE     Sequence of the Bacteriophage P22 Anti-RecBCD (abc) Genes and
            Properties of P22 abc Region Deletion Mutants
  JOURNAL   Virology 160, 456-464 (1987)
  STANDARD  full automatic
REFERENCE   7  (bases 1 to 5960)
  AUTHORS   Wulff,D.L., Ho,Y., Powers,S. and Rosenberg,M.
  TITLE     The int genes of bacteriophages P22 and lambda are regulated by
            fundamentally different mechanisms
  JOURNAL   Unpublished (1993)
  STANDARD  full automatic
FEATURES             Location/Qualifiers
     RBS             complement(one-of(4654..4656,4664..4667))
                     /note="'Translation initiation site according to ''Rule
                     2'' and AlgorithmW71, but not according to Algorithms W51
                     and W101 of refs. [5,6].'"
                     /gene="ORF45"
                     /citation=[7]
     RBS             complement(one-of(5148..5150,5159..5162))
                     /note="'Translation initiation site according to ''Rule
                     2'' and AlgorithmsW71 and W51, but not according to
                     Algorithm W101 of refs. [5,6].'"
                     /gene="eaE"
                     /citation=[7]
                     /citation=[6]
     RBS             complement(one-of(4542..4544,4554..4557))
                     /note="'Translation initiation site according to ''Rule
                     2'' and AlgorithmW71, but not according to Algorithms W51
                     and W101 of refs. [5,6].'"
                     /gene="eaF"
                     /citation=[7]
     RBS             complement(one-of(4186..4188,4197..4200))
                     /note="'Translation initiation site according to ''Rule
                     2'', but notAlgorithms W51, W71 or W101 of refs. [5,6].'"
                     /gene="eaD"
                     /citation=[7]
     RBS             complement(one-of(3590..3592,3599..3601))
                     /note="'Translation initiation site according to ''Rule
                     2'' and AlgorithmsW51, W71, and W101 of refs. [5,6].'"
                     /gene="eaI"
                     /citation=[7]
     RBS             complement(one-of(3398..3400,3409..3412))
                     /note="'Translation initiation site according to ''Rule
                     2'' and AlgorithmsW51, W71, and W101 of refs. [5,6].'"
                     /gene="eaA"
                     /citation=[7]
     RBS             complement(one-of(2348..2350,2357..2362))
                     /note="'Translation initiation site according to ''Rule
                     2'', andAlgorithms W51, W71 and W101 of refs. [5,6].'"
                     /gene="eaG"
                     /citation=[7]
     RBS             complement(one-of(2068..2070,2078..2081))
                     /note="'Translation initiation site according to ''Rule
                     2'', but notAlgorithms W51, W71, or W101 of refs. [5,6].'"
                     /gene="eaC"
                     /citation=[7]
     protein_bind    1585..1588
                     /function="'Activates transcription from the paI
                     promoter.'"
                     /bound_moiety="'P22 c1 protein'"
                     /evidence="EXPERIMENTAL"
                     /citation=[7]
     -35_signal      1589..1594
                     /note="'paI promoter (-35 region). Activated by P22 c1
                     protein.'"
                     /citation=[7]
     protein_bind    1595..1598
                     /function="'Activates transcription from the paI
                     promoter.'"
                     /bound_moiety="'P22 c1 protein'"
                     /evidence="EXPERIMENTAL"
                     /citation=[7]
     -10_signal      1612..1617
                     /note="'paI promoter (-10 region). Activated by P22 c1
                     protein.'"
                     /citation=[7]
     promoter        1622..1623
                     /standard_name="'paI'"
                     /note="'Activated by P22 c1 protein.'"
                     /evidence="EXPERIMENTAL"
                     /label=paI
                     /citation=[7]
     terminator      complement(2085..2107)
                     /note="'Function is inferred from identity of the
                     terminator sequence tothet'I sequence of bacteriophage
                     lambda.'"
                     /label=t'I
     misc_feature    2085..2184
                     /note="'identical to 29106..29165 in bacteriophage
                     lambda'"
                     /label=identity
     misc_feature    3967..4077
                     /note="'98 out of 111 bp are identical to 30168..30278 in
                     bacteriophage lambda'"
                     /label=similarity
     repeat_region   4170..4195
                     /rpt_type=direct
                     /note="repeats bases 4526..4551"
                     /label=repeat2
     repeat_region   4526..4551
                     /rpt_type=direct
                     /note="repeat of 4170..4195"
                     /label=repeat1
     CDS             complement(1435..2070)
                     /note="'identification based upon correlation between open
                     reading framesinsequence (ref.[1]) and protein map
                     produced using P22 deletion strains(ref.[4]).'"
                     /citation=[7]
                     /citation=[1]
                     /gene="eaC"
                     /product="'EaC'"
                     /codon_start=1
                     /translation="MSGQSKYYDYYMVEGEDVKELIQSYDTINDQRNSILTTAAEKVG
                     AIAWTTARSWGGEGGLLQSFVWEKGYEFPCQITIKREDFLDGKRVVIARGKGNTKEGR
                     AYNKELDAIMHNANAKLKSLPEWNYYITNHYGIMRTGIGGQSGRGFGFVMLSTYGGKH
                     PQRDDCLIFAIPNNKEERHGVVVIPDAFKKITYGQFYDMPNAKEDEEETAE"
     CDS             complement(2171..2350)
                     /note="'For means of identification, see note for eaC. The
                     identificationisuncertain because it depends upon
                     ''preliminary results'' in ref. [4] thatindicate an order
                     of eaC-eaG-eaA.'"
                     /citation=[7]
                     /citation=[1]
                     /gene="eaG"
                     /product="'EaG(?)'"
                     /codon_start=1
                     /translation="MSCPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDSKDAFGERGKN
                     EFVRINKERKGNEKS"
     CDS             complement(2447..3400)
                     /note="'Identified as described in note for eaC.'"
                     /citation=[7]
                     /citation=[1]
                     /gene="eaA"
                     /product="'EaA'"
                     /codon_start=1
                     /translation="MTTITKERIELFVKSPLENGLTRGEQMELARIALASLDAETVRY
                     LNKFSGTCVTLEQQPNAADDVAVYIPLYAAPPVPERERIRREHAEWSDKTFGDVGPVG
                     PLKHLSKEALEAAADPSDPLEWADMQFLLWDAQRRMGISDEFITRAMIEKLEINKTRQ
                     WPEPKDGEPRLHIKEQPESVVPEECPAELPYAQVKAVADLYALCWQSGEVVTYTPDPE
                     KATIWINNYSGTCVQEYVKLERLQEALAGNSPVIPGGWISCSERMPDNDESKPIAIFT
                     GKCLGQGMFVATYDDDGFFDYWEGMEIIGVSHWMQLPDPPL"
     CDS             complement(3404..3592)
                     /note="'Identified as described in note for eaC.'"
                     /citation=[7]
                     /citation=[1]
                     /gene="eaI"
                     /product="'EaI'"
                     /codon_start=1
                     /translation="MKIGEHMKPVIELLEELNGNDTDAKLKLLALVISEYMLNADVTG
                     FEVSAGRMKVAVDISVED"
     CDS             complement(3595..4188)
                     /note="'Identified as described in note for eaC. EaD
                     shares areas ofsignificant homology to lambda protein
                     Ea22, along with areas of totaldivergence.'"
                     /citation=[7]
                     /citation=[1]
                     /gene="eaD"
                     /product="'EaD'"
                     /codon_start=1
                     /translation="MSNIDKQALREEFQYMQDHYSDPADRARQVIYIAAEALLDELDK
                     KQQYIKLRDQEDEDIALTVGKLRVELEAAKKRMTEQSAIVAAAEKLVRCKGRYHSELN
                     YRALAKLFGVITPDLPPLEHENVHYADAAEVEITALRQRIQELEAKLETDDKLQDGAF
                     RDGLKAGFSYGQTDDQSGFTQCMSAYSTRAGIKVKGE"
     CDS             complement(4185..4544)
                     /note="'Identified as described in note for eaC.'"
                     /citation=[7]
                     /citation=[1]
                     /gene="eaF"
                     /product="'EaF'"
                     /codon_start=1
                     /translation="MSNIDKLNDHELVDLKRDIERELKRRAEGPKITTYYVVSCITDA
                     QHFTDMDCALRCLKRVTEDLMEWVAESPENRDYVNRCTGIVGAKLQVEEMNLDHFNMC
                     VAEKYFDDICYPPETAQ"
     CDS             complement(4519..4656)
                     /note="'"
                     /label=orf-45
                     /product="'Open reading frame with ribosome recognition
                     region. A proteinproduct has not been identified."
                     /codon_start=1
                     /translation="MITGTSNYDEVPTIPCKICGGYFKADDPENHKCEGQPNEQHRQT
                     Q"
     CDS             complement(4653..5150)
                     /note="'Identified as described in note to eaC. Ref. [3]
                     shows partialsequence, which is designated there as
                     ''orf-56''.'"
                     /citation=[7]
                     /citation=[1]
                     /gene="eaE"
                     /product="'EaE'"
                     /codon_start=1
                     /translation="MQQVKIYTASPSDLSPPVQSESFCVDLVLASDYRELEAKCAALV
                     VENGALKKSEVEFNDYCRHECEDVGDTWVDDFTETPATDAFLAEMRAQAHKEGAYFVA
                     NRMLAAWDAGFIDDTAKNAADIARMILTSTEFMADAPEGDFDRSFADGVIEDIAAQLR
                     KGVQS"
BASE COUNT     1319 a   1530 c   1310 g   1801 t
ORIGIN      
        1 taggttcgac tcctattatc ggcaccagtt aaatcaaata cttacgtatt attcgtgcct
       61 tccttatttt tactgtggga catatttggg acagaagtac caaaaatcga gtcaatttgt
      121 cgagcatgtt cagtcaggtg atttggtgcc agatgagcat atcggcgaac catttcgata
      181 gactcccagc cacccatttc ctgcaatacc gaaatcggaa cgccagcctg aactaaccaa
      241 cttgcccacg tgtgcctcag gtcatgaaaa cggaagtctt caatgcccgc tcgttttaat
      301 gctgccctcc atgcagtatt agcgtcatag cgcatcttcc tcactacagg tgatttagtt
      361 ccgtctggtt tggtgctgct ttccttgtag acgaacaccc atttgtgatg attgccgatt
      421 tgctttttca gcacccggca agcggtatca ttcagcgcca ctccaatggc atgattagac
      481 ttgctttgtt ccgggtgtat ccatgccacc tttcgttgca tgtctatctg ctgccactcc
      541 agattgataa tgttagaccg ccttaagcca gtagaaagcg caaactctac gactgacttt
      601 agcggttcct ggcattcatc aatcaacctt tttgcctcgt gaggctcaag ccagcggata
      661 cgcttatttt tcggctgagg aactttgatg atcggagcct tatccagcat cttccattcg
      721 cgttcagcag cccggaggag tgccttaatg aatgaaaggt gagttgcttt tgtagctact
      781 gctgccggct taggcttgaa taccggaggc tgcttcccat tcttcctgca agcttcatcc
      841 attaacttcc agttttcctc atgccgccga ttagttatct tctggatggc ggagtaaatc
      901 ttcgtctcgg taatatcctt caactgcatt cctgcaaaat gctggagcca gaatcctatc
      961 cgactcttgt catcatccag cgacttctta tgcgccttct cctctaacca cctgacacag
     1021 gccccctcaa aagtcatgtc aggcgtctct cctaatttac ttaccctcca tgcttctgcc
     1081 ttcagcttgt catgaagctc tgtggcctgc cttttgtcct ttgtcccaag agactgctta
     1141 aatcttttgc cgttcggcaa tgtgaaactg gcgtaccagg tttcacctct gcggaatagt
     1201 gacatttcag ttcctctgtt atgtcatcac ccgcgctcac ctggacagta tgcagcggag
     1261 attgaagtgc cgcaatgcag gcttgtcgtg tggtgaggta aggggatttc ggtttggtgg
     1321 ggtctttacg tgttgcctgt agtcggcctg tgcgaatcca gttggtggcg gtaggtctgg
     1381 atatcttgag aaatgcacag gcctcatcaa gtgtgaggct gtgtgattcc atgtttactc
     1441 cgctgtttct tcttcgtctt cttttgcgtt aggcatgtcg tagaattgcc cgtaagttat
     1501 tttcttgaat gcatcaggga taacaactac gccatgcctt tcttctttgt tatttggtat
     1561 tgcaaaaata agacaatcat cgcgttgcgg gtgcttgccg ccgtacgttg ataacataac
     1621 gaaaccaaag ccacggcccg attgaccacc aattcctgta cgcataatcc cgtagtggtt
     1681 ggttatgtag taattccatt caggcaagga ttttagcttg gcgttagcgt tatgcatgat
     1741 tgcatccagc tctttgttgt atgcgcggcc ttcctttgtg tttccctttc ctcgcgctat
     1801 cacaactctc ttcccgtcca aaaaatcctc gcgtttgatt gttatctggc atgggaattc
     1861 atatcctttt tcccaaacga agctttgtag aagtccgcct tctccacccc agctacgggc
     1921 tgtagtccat gcgattgcgc caaccttttc agcggctgtg gttaggattg aatttcgttg
     1981 atcgttaatg gtgtcgtatg actggataag ctccttaaca tcctcaccct ctaccatgta
     2041 gtagtcgtaa tatttgctct ggcctgacat ttattgtctc caataaaaaa ccgccatcag
     2101 gcggcttggt gttctttcag ttcttcaatt cgaatattgg ttacattgtt ttcatatatg
     2161 aataaataaa ttagcttttt tcgttgcctt tgcgttcctt attaattctg acaaactcgt
     2221 ttttaccacg ctctccaaat gcgtctttag agtcgttgta tccgcaatcg cagcacacat
     2281 aatcatcaga ccatccacgc attgtttttt cttttgcaat atttccagaa ccgcattttg
     2341 gacaagacat gtcactacct ccaaagcatg agtgagatga caacgtaaca ttgattggag
     2401 attaacaata gattgctgat gtaaaagata tgtataagct tcgctatcaa aggggaggat
     2461 ctggtagctg catccagtgg cttacaccga taatttccat accctcccaa tagtcaaaga
     2521 acccatcatc gtcgtatgta gcaacgaaca tcccctgacc cagacatttt ccggtaaaaa
     2581 ttgcgatggg tttagattca tcattatctg gcattcgctc actacagctt atccagccac
     2641 ccggaattac cggagagttg cctgccagcg cttcttgcag tcgttcaagc ttcacgtatt
     2701 cctgaacgca agttcccgag tagttattta tccagatggt cgccttttct gggtcaggcg
     2761 tataagtaac cacttctccc gactgccagc acagggcgta caggtcagcg actgccttaa
     2821 cctgtgcgta tggcaactcg gcagggcatt cctccggcac taccgactct ggctgctctt
     2881 tgatatgcag tcgtggctcg ccgtctttcg gttcaggcca ctggcgtgtt ttgtttatct
     2941 ccagtttttc aatcatcgcc ctcgtaatga attcgtcgga aattcccatg cgccgctggg
     3001 catcccacaa taaaaactgc atatcagccc attcaagcgg gtctgatggg tcggcagcgg
     3061 cttccagcgc ttctttcgaa agatgtttaa gcgggccgac tggaccaaca tcgccgaacg
     3121 tcttatctga ccactcggcg tgctcacggc gaatacgttc gcgttctggc actggcgggg
     3181 cggcgtagag cggtatatac acggcaacat catcagcagc atttggctgc tgctctaatg
     3241 tcacgcatgt accggaaaat ttattcaggt atcgcacagt ctcagcatcc agcgatgcca
     3301 gcgcaatccg tgccagctcc atttgttcgc cacgggtaag cccgttttca agcggcgatt
     3361 taacgaacaa ttcaatacgt tctttggtaa tagtggtcat gggttagtcc tcaacgctga
     3421 tatcaacggc cactttcatt ctcccggcag aaacttcaaa accggtgaca tccgcattaa
     3481 gcatgtattc agatataacc agcgcaagaa gttttaactt cgcgtctgta tcgttaccgt
     3541 tcaattcttc aagaagctca ataactggct tcatatgttc accaatcttc atgctcattc
     3601 ccccttaacc ttgatgccag cgcgtgtgct atatgcagac atgcactgcg tgaacccgga
     3661 ttggtcatct gtctgcccat aactgaaccc tgctttcagg ccgtcacgga atgcgccatc
     3721 ctgcaacttg tcgtcagttt caagcttcgc ctccagttct tgaatacgct ggcgtaacgc
     3781 tgtaatttcc acctcagcag cgtctgcgta atgaacgttt tcatgctcaa gtggtggtaa
     3841 atccggcgta atgacaccaa aaagttttgc cagcgcccgg taattcagtt cgctgtgata
     3901 acgacctttg cagcgaacca gtttttcagc agcagctaca atcgcgcttt gttctgtcat
     3961 gcgctttttt gctgcttcca gctcaactcg cagcttccca accgtaagcg caatatcctc
     4021 gtcctcctgg tcgcggagtt tgatgtattg ctgtttttta tccagctcat ccagcagcgc
     4081 ctctgcggcg atataaataa cctggcgtgc acggtctgct gggtcgctgt aatggtcttg
     4141 catgtactgg aattcttcac gcagcgcctg tttgtcgatg ttgctcattg ggctgtctcc
     4201 ggtggataac aaatatcgtc gaaatatttt tctgcaacgc acatgttgaa gtgatcgaga
     4261 ttcatctcct ccacctggag ttttgcccca acaatacccg tgcatcgatt gacgtaatcc
     4321 cgattttctg gggattccgc tacccactcc ataaggtctt cggtgacacg ttttaagcaa
     4381 cgtaaggcgc agtccatatc agtaaaatgc tgagcatctg tgatgcagga gacgacataa
     4441 tacgtggtga tttttggccc ttcagcgcgt cgcttaagtt ctctctctat atctcttttc
     4501 agatcaacca gttcatggtc attgagtttg tcgatgttgc tcattgggct ggccctcgca
     4561 tttgtgattt tctggatcat cggctttgaa ataaccgccg cagattttgc agggtatcgt
     4621 cggcacttcg tcgtaatttg aggttcccgt aatcatgact gcactccttt gcgaagctgg
     4681 gcggcgatat cttcgataac gccatcggcg aatgagcgat caaaatcgcc ttccggtgca
     4741 tcagccataa attctgtgga ggtcagtatc attcgtgcga tgtccgcagc gttctttgct
     4801 gtgtcgtcga taaatcctgc atcccatgcg gccagcattc ggttagcaac aaagtaagcg
     4861 ccttccttgt gagcctgcgc ccgcatctcc gccagaaagg cgtctgtcgc cggggtctca
     4921 gtgaaatcgt ctacccacgt atcgccaacg tcctcgcact cgtgacgaca ataatcgttg
     4981 aattcgacct ctgatttttt cagtgcccca ttctccacca ccagtgccgc gcatttcgcc
     5041 tccagttccc gataatccga cgccagcacc agatccacac agaacgattc agactgtacc
     5101 ggtggggata aatctgatgg ggatgcggtg taaattttta cctgttgcat ttatctttcc
     5161 tcagtatcgc attcaaatat ttattctcgt taatagaagg aaatgaattg cgctgcaata
     5221 attcttcgcg tgtaggcatt ggtttaattt tgtgcctaat aataagttcg gctggtagaa
     5281 tgtcgggatt gtatgcaagt cctctcatcg taaactcctc agttattgct gatagctccg
     5341 taacgcgaac ggtaatcacg aagacgcggg tctatttcaa tgaatttggt gtaagtggct
     5401 ttgcggaatg gccggatggc tgtctggtaa attcgctcgc gttcttcttt ctctgcaagc
     5461 catatacagt ggcgaaattc cttttcctct ttcgtttcct gcggtagtga cattatcagg
     5521 tcgtagtttt ttctgaattt atccagcacc tccgatacgg aattgccgga acagcggcgc
     5581 gggtcatccg caccatacaa aggcgctggc ataatttact ccagggtagg ttatccgaat
     5641 aatgtggtac gtatagggtt atttctttcg taaacgtgat agcctgcttt ttaccgactc
     5701 ttcacttcgc ccgagaattt ttgctacatt tctttgtgta tagcctgatg agataagcgt
     5761 ctgcattctt ttgtcttcgt cgtcgctcca tcttggctta atgaatgccg tttttaatga
     5821 cagttttttt gctatgtaat aaaactgatt tatgtttagg cccagatgtt ctgctgcacg
     5881 gcaagctacc atgcgaccgc aaactgactc catctccgct gtagttatgt ttaatcttct
     5941 cattaagcca cctgtttaag
//