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Table 3 KL3 genome annotation

From: Genomic analysis and relatedness of P2-like phages of the Burkholderia cepacia complex

Gene Start End Putative function Strand Predicted RBS and start codon Length (no. of aa residues) Closest relative Alignment region (no. of aa residues) % ID Source GenBank accession no.
1 122 1150 integrase - GGCGCAGtgtgATG 342 integrase family protein 1-342/342 98 Burkholderia ambifaria MEX-5 ZP_02905720.1
2 1150 1416 unknown - GAAAAtcaccATG 88 hypothetical protein BamMEX5DRAFT_1075 1-88/88 97 Burkholderia ambifaria MEX-5 ZP_02905721.1
3 2096 4891 zinc finger CHC2-family protein - AACAGCAAtaacgATG 931 zinc finger CHC2-family protein 1-931/931 95 Burkholderia ambifaria MEX-5 ZP_02905722.1
4 4894 5142 unknown - GGAGGcgcagcagcATG 82 conserved hypothetical protein 1-82/84 91 Burkholderia ambifaria MEX-5 ZP_02905723.1
5 5139 5501 unknown - GCGGGGctgacacgATG 120 conserved hypothetical protein 1-120/120 97 Burkholderia ambifaria MEX-5 ZP_02905724.1
6 5506 5700 membrane protein - GGAAccacaccATG 64 putative phage-encoded membrane protein 1-64/64 93 Burkholderia ambifaria MEX-5 ZP_02905725.1
7 5744 5938 unknown - GCACTGAtccgATG 64 hypothetical protein bglu_1 g03740 1-64/64 95 Burkholderia glumae BGR1 YP_002910278.1
8 5943 6155 unknown - GAAAAAAGGAGAtcagcATG 70 conserved hypothetical protein 1-70/70 72 Burkholderia sp. CCGE1001 ZP_06292843.1
9 6243 6491 transcriptional activator (Ogr) - GGAGTAAGccgaaATG 82 putative phage transcriptional activator Ogr/Delta 1-82/82 92 Burkholderia glumae BGR1 YP_002910024.1
10 6479 6682 unknown - AATGAGTAGctcctacgATG 67 hypothetical protein BoklE_00724 1-67/67 85 Burkholderia oklahomensis EO147 ZP_02353966.1
11 6722 6919 unknown - GAGGAGcccgcATG 65 hypothetical protein BoklE_00729 1-65/65 87 Burkholderia oklahomensis EO147 ZP_02353967.1
12 6934 7143 unknown - AAAGTATAccgaccATG 69 hypothetical protein BoklE_00734 1-62/71 87 Burkholderia oklahomensis EO147 ZP_02353968.1
13 7193 7732 repressor + GGTAAGGctagtgtaATG 179 hypothetical protein BCAL0086 1-163/163 62 Burkholderia cenocepacia J2315 YP_002229252.1
14 7904 8179 unknown + GAGGGAccagaagaATG 91 hypothetical protein BuboB_27112 1-91/98 50 Burkholderia ubonensis Bu ZP_02381422.1
15 8238 9329 tail protein (D) - GGACGCGGAGccgaaggcATG 363 fels-2 prophage protein 19-366/366 81 Burkholderia oklahomensis EO147 ZP_02353972.1
16 9326 9784 tail protein (U) - ACGGAGGAtctgtcccATG 152 bacteriophage tail-related protein 1-133/141 66 Burkholderia oklahomensis EO147 ZP_02353973.1
17 9806 13033 tail tape measure protein (T) - GAAGCGGAcacgagtaacgATG 1075 hypothetical protein bglu_1 g01240 1-1079/1079 59 Burkholderia glumae BGR1 YP_002910030.1
18 13158 13508 tail protein (E) - AGGACACGcaacatATG 116 gpE+E' 1-114/114 76 Burkholderia pseudomallei 112 ZP_02501899.1
19 13036 13508 tail protein (E+E') - AGGACACGcaacatATG 157 gpE+E' 1-100/114 74 Burkholderia pseudomallei 112 ZP_02501899.1
20 13578 14087 tail tube protein (FII) - AGGAGtcacacacATG 169 phage major tail tube protein 1-169/169 74 Burkholderia cenocepacia J2315 YP_002229260.1
21 14103 15275 tail sheath protein (FI) - AGGAGctgcacaccATG 390 phage tail sheath protein 1-390/390 84 Burkholderia pseudomallei 1655 ZP_04890547.1
22 15328 15951 tail fiber assembly protein - ACGGAcctcgaaacATG 207 tail fiber assembly protein from lambdoid prophage e14 1-190/209 85 Burkholderia ubonensis Bu ZP_02381414.1
23 15969 18632 tail fiber protein - GGATAcctgaacATG 887 putative phage tail protein 1-883/883 71 Burkholderia cenocepacia J2315 YP_002229263.1
24 18635 19189 baseplate assembly protein (I) - GATGGCGGGGtcgcggATG 184 phage-related tail protein 1-183/184 84 Burkholderia pseudomallei 7894 ZP_02487653.1
25 19182 20087 baseplate assembly protein (J) - GAACGGAGtcggcgcATG 301 baseplate J-like protein 1-301/301 90 Burkholderia thailandensis E264 YP_439531.1
26 20084 20446 baseplate assembly protein (W) - GGAGCGGtgcATG 120 phage baseplate assembly protein 1-117/120 78 Burkholderia pseudomallei 7894 ZP_02487655.1
27 20443 21138 baseplate assembly protein (V) - GAGGGCGGccggcaacATG 231 phage baseplate assembly protein 33-261/261 72 Burkholderia phage ϕ52237 YP_293735.1
28 21304 22080 N-4/N-6 DNA methylase + ACGTTGcctcagaaccATG 258 site-specific DNA methyltransferase 34-290/291 78 Burkholderia pseudomallei K96243 YP_111089.1
29 22060 22527 tail completion protein (S) - GAGCAATGGGtggcgtgATG 155 phage virion morphogenesis protein 1-155/155 87 Burkholderia thailandensis MSMB43 ZP_02466375.1
30 22527 22943 tail completion protein (R) - AGACGGccgcccATG 138 bacteriophage tail completion protein R 1-138/138 73 Burkholderia pseudomallei K96243 YP_111086.1
31 22936 23220 Rz1 (LysC) - GGAGActcatcgATG 94 hypothetical phage protein 1-83/91 75 Burkholderia pseudomallei 1655 ZP_04890536.1
32 23057 23497 Rz (LysB) - GAAGGcggccgcGTG 146 protein lysB 1-146/146 62 Burkholderia thailandensis E264 YP_439538.1
33 23494 24303 endolysin - GGAGCAccgaatcATG 269 putative phage-encoded peptidoglycan binding protein 1-269/270 73 Burkholderia pseudomallei K96243 YP_106791.1
34 24300 24572 holin - AGGGGGAAAtgacATG 90 protein of unknown function DUF754 1-88/88 67 Burkholderia sp. CCGE1001 ZP_06292819.1
35 24574 24918 putative antiholin - GGAAttgtccgaATG 114 hypothetical protein Bpse38_23639 1-113/114 83 Burkholderia thailandensis MSMB43 ZP_02466369.1
36 24934 25140 tail protein (X) - GGTTGAActgatctgATG 68 phage tail protein X 1-68/68 88 Burkholderia pseudomallei 7894 ZP_02487665.1
37 25140 25619 capsid completion protein (L) - GAATCGaccATG 159 fels-2 prophage protein 1-159/159 86 Burkholderia thailandensis E264 ZP_05590935.1
38 25719 26408 terminase endonuclease subunit (M) - GAGCTGGtggcggcATG 229 hypothetical protein bglu_1 g01450 1-228/229 95 Burkholderia glumae BGR1 YP_002910051.1
39 26405 27418 capsid protein (N) - GGAGAAcccaactcATG 337 Gp2, phage major capsid protein, P2 family protein 1-337/337 98 Burkholderia glumae BGR1 YP_002910052.1
40 27454 28266 capsid scaffolding protein (O) - GGTTCGAcctctctctATG 270 phage capsid scaffolding protein (GPO) 1-270/270 95 Burkholderia glumae BGR1 YP_002910053.1
41 28345 30180 terminase ATPase subunit (P) + AACGAGcggcgtATG 611 phage terminase, ATPase subunit 1-589/589 99 Burkholderia glumae BGR1 YP_002910054.1
42 30177 31226 portal vertex protein (Q) + GGAGttctattcATG 349 Gp5, phage portal protein, pbsx family protein 1-347/351 99 Burkholderia glumae BGR1 YP_002910055.1
43 31595 31732 unknown + GATGcgcgATG 45 none     
44 31722 33290 unknown - GGGGAAAGcaacatATG 522 hypothetical protein ECO103_1901 1-526/527 54 E. coli O103:H2 str. 12009 YP_003221840.1
45 33455 34699 EcoRII-C endonuclease - AACGGAGcttcggggATG 414 type II restriction endonuclease, EcoRII-C domain protein 1-401/401 77 Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum) YP_002923978.1
46 34696 35142 Vsr endonuclease - TCGCctgATG 148 DNA mismatch endonuclease Vsr 1-148/148 77 Burkholderia graminis C4D1M ZP_02883050.1
47 35142 36410 EcoRII DNA cytosine methylase - AGCGAGAGcaaatATG 422 DNA-cytosine methyltransferase 1-426/426 81 Burkholderia phytofirmans PsJN YP_001894783.1
48 36570 37685 unknown - AAGCTGAcgctATG 372 conserved hypothetical protein 1-371/371 95 Burkholderia ambifaria MEX-5 ZP_02905764.1
49 37728 38816 unknown - AGTTctctaattgacATG 362 GP30 family protein 1-362/362 96 Burkholderia ambifaria MEX-5 ZP_02905765.1
50 38822 39526 unknown - GGGAGAAGcctgaATG 234 VRR-NUC domain protein 1-234/234 99 Burkholderia ambifaria MEX-5 ZP_02905766.1
51 39523 40032 unknown - AGGAGttcagcATG 169 PAAR repeat-containing protein 1-169/169 97 Burkholderia ambifaria MEX-5 ZP_02905767.1
52 40202 40408 transcriptional regulator + AAGGAGAAAtagcATG 68 phage transcriptional regulator, AlpA 1-68/72 94 Burkholderia ambifaria MEX-5 ZP_02905768.1
  1. Abbreviations: RBS, ribosome-binding site; aa, amino acid; % ID, percent identity. The P2 proteins that are similar to KL3 proteins based on CoreGenes analysis are shown in brackets in the putative function column.