Table 1 KS5 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 (excluding ATCC 17616) | Alignment region (no. of aa residues) | % ID | Source | GenBank accession no. | ATCC 17616 locus tag | ATCC 17616 GenBank accession no. |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | 108 | 815 | integrase | - | AGCAACAAGcacaaggcaTTG | 235 | integrase family protein | 134-368/368 | 87 | Burkholderia thailandensis MSMB43 | ZP_02468407.1 | BMULJ_03640 | YP_001948048.1 |
2 | 2142 | 4937 | zinc finger CHC2-family protein | - | GAGCAACAGcaataacgATG | 931 | conserved hypothetical protein | 1-931/931 | 96 | Burkholderia multivorans CGD1 | ZP_03587581.1 | BMULJ_03641 | YP_001948049.1 |
3 | 4940 | 5200 | unknown | - | GGGGGAAGccgcATG | 86 | conserved hypothetical protein | 1-86/86 | 91 | Burkholderia multivorans CGD1 | ZP_03587582.1 | BMULJ_03642 | YP_001948050.1 |
4 | 5197 | 5556 | unknown | - | GGGGGTGAtgtgATG | 119 | conserved hypothetical protein | 1-119/119 | 97 | Burkholderia multivorans CGD1 | ZP_03587583.1 | BMULJ_03643 | YP_001948051.1 |
5 | 5561 | 5755 | membrane protein | - | GGAGccaaaccATG | 64 | putative phage-encoded membrane protein | 1-64/64 | 78 | Burkholderia ambifaria MEX-5 | ZP_02905725.1 | BMULJ_03644 | YP_001948052.1 |
6 | 5798 | 6001 | unknown | - | GGATGcactgaccgATG | 67 | conserved hypothetical protein | 1-67/67 | 92 | Burkholderia multivorans CGD1 | ZP_03587585.1 | BMULJ_03645 | YP_001948053.1 |
7 | 6005 | 6199 | unknown | - | GGAGAGActcATG | 64 | conserved hypothetical protein | 1-64/64 | 98 | Burkholderia multivorans CGD1 | ZP_03587586.1 | BMULJ_03646 | YP_001948054.1 |
8 | 6289 | 6537 | transcriptional activator (Ogr) | - | GTAGGAGccccgaATG | 82 | transcriptional activator Ogr/delta | 1-82/82 | 91 | Burkholderia cenocepacia MC0-3 | YP_001763475.1 | BMULJ_03647 | YP_001948055.1 |
9 | 6547 | 6825 | DNA binding protein | - | GGGCGttgagtcATG | 92 | putative phage DNA-binding protein | 1-92/92 | 98 | Burkholderia ambifaria MEX-5 | ZP_02905729.1 | BMULJ_03648 | YP_001948056.1 |
10 | 6829 | 7065 | unknown | - | GAAGGGAAGtataccgtcATG | 78 | putative bacteriophage protein | 1-77/78 | 80 | Burkholderia sp. CCGE1001 | ZP_06292840.1 | BMULJ_03649 | YP_001948057.1 |
11 | 7121 | 7603 | repressor | + | GATAATACAcaccgatcgGTG | 160 | putative phage DNA-binding protein | 12-166/167 | 79 | Burkholderia pseudomallei K96243 | YP_106769.1 | BMULJ_03650 | YP_001948058.1 |
12 | 7660 | 8406 | membrane protein | + | AGGGAAttcaATG | 248 | putative phage-encoded membrane protein | 1-241/249 | 43 | Burkholderia pseudomallei K96243 | YP_106770.1 | BMULJ_03651 | YP_001948059.1 |
| Â | 8971 | 8975 | direct repeat flanking ISBmu 23 | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
ISBmu 23 | 8976 | 10185 | ISBmu 23 insertion sequence | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
| Â | 8976 | 8991 | ISBmu 23 inverted repeat | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
| Â | 9063 | 10055 | ISBmu 23 transposase | + | GGAACGGAcccacgacgATG | 330 | transposase IS4 family protein | 1-330/330 | 100 | Burkholderia sp. Ch1-1 | ZP_06846513.1 | BMULJ_03652 | YP_001948060.1 |
| Â | 10170 | 10185 | ISBmu 23 inverted repeat | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
| Â | 10185 | 10189 | direct repeat flanking ISBmu 23 | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
13 | 10359 | 11510 | tail protein (D) | - | AAGGAGGcgatctcgctATG | 383 | phage late control gene D protein | 1-379/382 | 96 | Burkholderia multivorans CGD1 | ZP_03587594.1 | BMULJ_03653 | YP_001948061.1 |
14 | 11507 | 11935 | tail protein (U) | - | GAAGGAGGGAttgtcATG | 142 | bacteriophage gpU | 1-142/142 | 95 | Burkholderia multivorans CGD1 | ZP_03587595.1 | BMULJ_03654 | YP_001948062.1 |
15 | 11949 | 14711 | tail tape measure protein (T) | - | GAGCGAGGcgacgaATG | 920 | putative phage-related tail transmembrane protein | 1-919/919 | 91 | Burkholderia cenocepacia MC0-3 | YP_001763483.1 | BMULJ_03655 | YP_001948063.1 |
16 | 14827 | 15138 | tail protein (E) | - | AGAGGAAccatacgATG | 103 | phage tail protein E | 1-103/103 | 97 | Burkholderia multivorans CGD1 | ZP_03587598.1 | BMULJ_03657 | YP_001948065.1 |
17 | 14708 | 15138 | tail protein (E+E') | - | AGAGGAAccatacgATG | 143 | phage tail protein E | 1-87/103 | 97 | Burkholderia multivorans CGD1 | ZP_03587598.1 | BMULJ_03656 BMULJ_03657 | YP_001948064.1 YP_001948065.1 |
18 | 15171 | 15680 | tail tube protein (FII) | - | AGGGAAAcgcaATG | 169 | phage major tail tube protein | 1-169/169 | 94 | Burkholderia multivorans CGD1 | ZP_03587599.1 | BMULJ_03658 | YP_001948066.1 |
19 | 15710 | 16882 | tail sheath protein (FI) | - | GGGAGAttgcATG | 390 | tail sheath protein | 1-390/390 | 94 | Burkholderia cenocepacia MC0-3 | YP_001763487.1 | BMULJ_03659 | YP_001948067.1 |
20 | 16993 | 17742 | N-4/N-6 DNA methylase | - | GAGGGAAtcgccccATG | 249 | DNA methylase N-4/N-6 domain protein | 1-249/249 | 89 | Burkholderia ambifaria MEX-5 | ZP_02905740.1 | BMULJ_03660 | YP_001948068.1 |
21 | 17720 | 17902 | Com translational regulator | - | AAGCAGGAAtcacccgATG | 60 | hypothetical protein Bcenmc03_0187 | 1-60/60 | 85 | Burkholderia cenocepacia MC0-3 | YP_001763489.1 | BMULJ_03661 | YP_001948069.1 |
22 | 18049 | 18927 | tail fiber assembly protein | - | GAGACACAcctATG | 292 | gp31, bacteriophage-acquired protein | 1-272/278 | 89 | Burkholderia multivorans CGD1 | ZP_03587603.1 | BMULJ_03662 | YP_001948070.1 |
23 | 18937 | 20547 | tail fiber protein | - | GGATAcctgaacATG | 536 | bacteriophage protein | 1-536/536 | 99 | Burkholderia multivorans CGD1 | ZP_03587604.1 | BMULJ_03663 | YP_001948071.1 |
24 | 20550 | 21104 | baseplate assembly protein (I) | - | GGGGTGGccgATG | 184 | ZP_03587605.1 | 1-184/184 | 92 | Burkholderia multivorans CGD1 | ZP_03587605.1 | BMULJ_03664 | YP_001948072.1 |
25 | 21097 | 22002 | baseplate assembly protein (J) | - | GAGGCAcggcATG | 301 | ZP_03587606.1 | 1-301/301 | 94 | Burkholderia multivorans CGD1 | ZP_03587606.1 | BMULJ_03665 | YP_001948073.1 |
26 | 21999 | 22376 | ZP_03587607.1 | - | GAAGGGGcacggATG | 125 | baseplate assembly protein W (GpW) | 1-125/125 | 89 | Burkholderia multivorans CGD1 | ZP_03587607.1 | BMULJ_03666 | YP_001948074.1 |
27 | 22373 | 23005 | baseplate assembly protein (V) | - | GCGGCAtccttgccgcATG | 210 | YP_001763496.1 | 1-137/234 | 78 | Burkholderia cenocepacia MC0-3 | YP_001763496.1 | BMULJ_03667 | YP_001948075.1 |
28 | 23206 | 25086 | exonuclease (Old) | - | AAGTGGGGAccaactATG | 626 | ATP-dependent endonuclease | 1-625/626 | 72 | Cupriavidus metallidurans CH34 | YP_586772.1 | BMULJ_03668 | YP_001948076.1 |
29 | 25269 | 25718 | tail completion protein (S) | - | GGGGAcgtgATG | 149 | phage virion morphogenesis protein | 1-148/149 | 89 | Burkholderia multivorans CGD1 | ZP_03587610.1 | BMULJ_03669 | YP_001948077.1 |
30 | 25718 | 26128 | tail completion protein (R) | - | AGGAGGcgccGTG | 136 | P2 phage tail completion protein R (GpR) | 1-136/136 | 96 | Burkholderia multivorans CGD1 | ZP_03587611.1 | BMULJ_03670 | YP_001948078.1 |
31 | 26172 | 26366 | Rz1 | - | AAGGAGGttccggtttATG | 64 | Ribonuclease, Rne/Rng family | 15-48/928 | 47 | Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1 | YP_003687809.1 | none | Â |
32 | 26125 | 26616 | Rz | - | GGGTGGccgcATG | 163 | conserved hypothetical protein | 1-163/163 | 85 | Burkholderia ambifaria MEX-5 | ZP_02905751.1 | BMULJ_03671 | YP_001948079.1 |
33 | 26613 | 27413 | endolysin | - | GGGGGcgccATG | 266 | peptidoglycan binding domain-containing protein | 1-266/266 | 90 | Burkholderia cenocepacia MC0-3 | YP_001763501.1 | BMULJ_03672 | YP_001948080.1 |
34 | 27406 | 27726 | holin | - | AAGGGGAGGGAcaagtgATG | 106 | protein of unknown function DUF754 | 1-106/106 | 88 | Burkholderia ambifaria MEX-5 | ZP_02905753.1 | BMULJ_03673 | YP_001948081.1 |
35 | 27726 | 28100 | putative antiholin | - | ATGGGActgagaATG | 124 | phage-related transmembrane protein | 1-124/124 | 96 | Burkholderia multivorans CGD1 | ZP_03587615.1 | BMULJ_03674 | YP_001948082.1 |
36 | 28103 | 28315 | tail protein (X) | - | AGGGAGctgtcctgATG | 70 | tail X family protein | 1-70/70 | 94 | Burkholderia cenocepacia MC0-3 | YP_001763504.1 | BMULJ_03675 | YP_001948083.1 |
37 | 28315 | 28557 | unknown | - | GTGGAGctcatctgATG | 80 | conserved hypothetical protein | 1-80/80 | 72 | Burkholderia multivorans CGD1 | ZP_03587617.1 | BMULJ_03676 | YP_001948084.1 |
38 | 28557 | 29033 | capsid completion protein (L) | - | AACGTGACGAAcccgaccATG | 158 | head completion protein | 1-160/160 | 85 | Burkholderia ambifaria MEX-5 | ZP_02905755.1 | BMULJ_03677 | YP_001948085.1 |
39 | 29138 | 29824 | terminase endonuclease subunit (M) | - | GGGTGGcgcATG | 228 | terminase | 1-228/228 | 93 | Burkholderia multivorans CGD1 | ZP_03587619.1 | BMULJ_03678 | YP_001948086.1 |
40 | 29821 | 30846 | capsid protein (N) | - | AAACGGAGAAtccATG | 341 | phage major capsid protein, P2 family | 1-339/339 | 77 | Burkholderia ambifaria MEX-5 | ZP_02905757.1 | BMULJ_03679 | YP_001948087.1 |
41 | 30884 | 31705 | capsid scaffolding protein (O) | - | AGAGGtttcgcacATG | 273 | phage capsid scaffolding protein GpO | 1-273/273 | 95 | Burkholderia multivorans CGD1 | ZP_03587621.1 | BMULJ_03680 | YP_001948088.1 |
42 | 31855 | 33621 | terminase ATPase subunit (P) | + | GGTAGccttgctgcATG | 588 | putative ATPase subunit of terminase (gpP-like) | 1-583/583 | 92 | Burkholderia multivorans CGD1 | ZP_03587622.1 | BMULJ_03681 | YP_001948089.1 |
43 | 33621 | 34673 | portal vertex protein (Q) | + | ATGGAGAttttctgATG | 350 | phage portal protein, pbsx family | 1-348/349 | 92 | Burkholderia multivorans CGD1 | ZP_03587623.1 | BMULJ_03682 | YP_001948090.1 |
44 | 35144 | 36163 | reverse transcriptase | - | GAATGGAtttccgaaaATG | 339 | putative reverse transcriptase | 2-285/292 | 42 | Sideroxydans lithotrophicus ES-1 | YP_003522714.1 | BMULJ_03683 | YP_001948091.1 |
45 | 36120 | 36443 | transcriptional regulator | - | GAAGGAGttgcatATG | 107 | transcriptional regulator | 1-97/97 | 52 | Acinetobacter baumannii ACICU | YP_001840883.1 | BMULJ_03684 | YP_001948092.1 |