Helicobacter pylori LIM-003 |
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Putative Helicobacter pylori LIM-003 RM systems
Ref: Gutierrez-Escobar,A.J. et al. Front Microbiol 11, 601839 (2020)
REBASE ref # 31890
Complete sequence: 1,639,295 bp
GenBank #: CP051539
REBASE acronym: HpyLIM3
Org_num: 48206
All begin HG576_
| Type I | ||||
|---|---|---|---|---|
| ORF | Gene | Most similar | Specificity | Name |
| 2145 | RNA degradosome polyphosphate kinase | |||
| ??? | S | S.HpyPE101ORF2160P (98% identity) | S.HpyLIM3ORF2160P | |
| 2160 | M | M.HpyPE130ORF2150P (98% identity) | M.HpyLIM3ORF2160P | |
| ??? | R | HpyPE101ORF2160BP (67% identity) | HpyLIM3ORF2160P | |
| 2175 | motility associated factor glycosyltransferase | |||
| 2875 | phosphatase PAP2 family protein | |||
| 2880 | M | M.HpyPE114ORF4095P (95% identity) | CTANNNNNNNNTGT | M.HpyLIM3ORF2880P |
| 2885 | restriction endonuclease subunit S | |||
| 2890 | R | HpyPE130ORF2875P (98% identity) | CTANNNNNNNNTGT | HpyLIM3ORF2880P |
| 2895 | hydroxyethylthiazole kinase | |||
| 2880 | type I restriction-modification system subunit | |||
| 2885 | S | S.HpyPE119XV (96% identity) | CCANNNNNNNNTGT | S.HpyLIM3XVI |
| 2890 | type I restriction endonuclease subunit R | |||
| 3170 | cadmium-translocating P-type ATPase | |||
| 3175 | S | S.HpyCRI8ORF3605P (97% identity) | CTANNNNNNNNTTC | S.HpyLIM3ORF3175P |
| 3180 | 104 aa hypothetical protein | |||
| 7360 | FAD-dependent thymidylate synthase | |||
| 7365 | S | S.HpyNCI22ORFXP (95% identity) | S.HpyLIM3ORF7375P | |
| 7370 | CAAX protease | |||
| 7375 | M | M.HpyPE111ORF7360P (96% identity) | M.HpyLIM3ORF7375P | |
| 7380 | R | HpyL018ORF7450P (94% identity) | HpyLIM3ORF7375P | |
| 7385 | M48 family metallopeptidase | |||
| Type II | ||||
| ORF | Gene | Most similar | Specificity | Name |
| 255 | agmatine deiminase | |||
| 260 | M | M1.HpyLI41V (99% identity) | CCTC | M.HpyLIM3IV |
| 265 | R | HpyPE03IXP (100% identity) | CCTC | HpyLIM3IVP |
| 270 | sodium/proline symporter PutP | |||
| 485 | 340 aa hypothetical protein | |||
| 490 | M | M.HpySP302VIII (98% identity) | GATC | M.HpyLIM3VII |
| 495 | alpha-1,2-fucosyltransferase | |||
| 1280 | exodeoxyribonuclease VII large subunit | |||
| ??? | M | M.HpyLIM8IX (98% identity) | TCGA | M.HpyLIM3X |
| 1290 | 204 aa hypothetical protein | |||
| 1290 | 204 aa hypothetical protein | |||
| 1295 | R | HpyLIM8ORF1275P (99% identity) | CCGG | HpyLIM3XIIIP |
| 1300 | M | M.HpyT023VI (100% identity) | CCGG | M.HpyLIM3XIII |
| 1305 | AAA domain-containing protein | |||
| 1535 | polysaccharide deacetylase | |||
| 1540 | R | HpyCOL121VP (100% identity) | CTNAG | HpyLIM3VP |
| 1545 | M | M.HpyPE130IV (100% identity) | CTNAG | M.HpyLIM3V |
| 1550 | 128 aa hypothetical protein | |||
| 2240 | Hop family outer membrane protein HopJ/HopK | |||
| 2245 | M | M.HpyMTT03ORFAP (96% identity) | ATTAAT | M.HpyLIM3ORF2245P |
| 2250 | glycosyltransferase family 9 protein | |||
| 2255 | translational GTPase TypA | |||
| 2260 | M | M.HpyCOL121ORF2260P (100% identity) | ACNGT | M.HpyLIM3ORF2260P |
| 2265 | R | Hpy340ORF7140P (99% identity) | ACNGT | HpyLIM3ORF2260P |
| 2270 | DNA cytosine methyltransferase | |||
| 2265 | GIY-YIG nuclease family protein | |||
| 2270 | M | M.HpyKH6ORFC1P (99% identity) | M.HpyLIM3ORF2270P | |
| 2275 | catalase | |||
| 2355 | DNA topoisomerase (ATP-hydrolyzing) subunit B | |||
| 2360 | M | M.HpySP704VIII (98% identity) | GTAC | M.HpyLIM3VIII |
| 2365 | R | HpyKG4XIIP (97% identity) | GTAC | HpyLIM3VIIIP |
| 2370 | M23 family metallopeptidase | |||
| 3680 | acetone carboxylase subunit gamma | |||
| 3685 | R | HpyPE101VP (100% identity) | CCNNGG | HpyLIM3IIIP |
| 3690 | M | M.HpySP204III (99% identity) | CCNNGG | M.HpyLIM3III |
| 3695 | 3-5 exonuclease | |||
| 3780 | 481 aa hypothetical protein | |||
| 3785 | RM | HpyCOL103ORF3695P (72% identity) | HpyLIM3ORF3785P | |
| 3790 | (Fe-S)-binding protein | |||
| 4515 | flagellar hook protein FlgE | |||
| ??? | R | HpyPE11XP (95% identity) | GTNNAC | HpyLIM3IXP |
| ??? | M | M.HpyPO07XI (95% identity) | GTNNAC | M.HpyLIM3IX |
| 4530 | ATP-dependent helicase | |||
| 5175 | acetyl-CoA carboxylase biotin carboxylase | |||
| 5180 | M | M.HpyPE116XI (100% identity) | TCNNGA | M.HpyLIM3XI |
| 5185 | R | HpyH020XP (98% identity) | TCNNGA | HpyLIM3XIP |
| 5190 | Laminin subunit alpha-2 precursor | |||
| 5375 | 144 aa hypothetical protein | |||
| ??? | M | M.HpyPE16XV (95% identity) | GCGC | M.HpyLIM3ORF5380P |
| 5385 | flagellar biosynthesis anti-sigma factor FlgM | |||
| 5840 | HAD family hydrolase | |||
| 5845 | M | M.HpyPE113I (98% identity) | CATG | M.HpyLIM3I |
| 5850 | IceA2 protein | |||
| 6540 | S41 family peptidase | |||
| 6545 | R | HpyPE119ORF6400P (100% identity) | GANTC | HpyLIM3ORF6550P |
| 6550 | M | M.HpyPE119ORF6400P (100% identity) | GANTC | M.HpyLIM3ORF6550P |
| 6555 | N-6 DNA methylase | |||
| 6550 | site-specific DNA-methyltransferase | |||
| 6555 | RM | HpyPE130ORF6600P (90% identity) | HpyLIM3ORF6555P | |
| 6560 | carboxylating nicotinate-nucleotide | |||
| 6610 | copper response regulator transcription factor | |||
| ??? | R | HpyPE130VP (100% identity) | GAAGA | HpyLIM3VIP |
| ??? | M | M1.HpyPE130V (98% identity) | GAAGA | M1.HpyLIM3VI |
| 6630 | M | M2.Hpyfe78ORF7125P (100% identity) | GAAGA | M2.HpyLIM3VI |
| 6635 | site-specific DNA-methyltransferase | |||
| 7045 | DNA polymerase I | |||
| 7050 | S | S.HpyU417ORF6865P (95% identity) | S.HpyLIM3ORF7055P | |
| 7055 | RM | HpyPE124ORF7330P (100% identity) | HpyLIM3ORF7055P | |
| 7060 | ComF family protein | |||
| 7190 | YjgP/YjgQ family permease | |||
| ??? | M | M2.HpyPE108XVI (79% identity) | CCATC | M1.HpyLIM3II |
| 7200 | M | M1.HpyPE124II (99% identity) | CCATC | M2.HpyLIM3II |
| 7205 | R | HpyCOL309IVP (99% identity) | CCATC | HpyLIM3IIP |
| 7210 | outer membrane protein | |||
| 7290 | 176 aa hypothetical protein | |||
| 7295 | RM | HpyC103ORF7025P (84% identity) | HpyLIM3ORF7295P | |
| 7300 | DEAD/DEAH box helicase family protein | |||
| 7460 | 67 aa hypothetical protein | |||
| 7465 | M | M.HpyPE17IV (99% identity) | TGCA | M.HpyLIM3XII |
| 7470 | R | HpyLI31XIP (98% identity) | TGCA | HpyLIM3XIIP |
| 7475 | elongation factor Ts | |||
| Type III | ||||
| ORF | Gene | Most similar | Specificity | Name |
| 6630 | site-specific DNA-methyltransferase | |||
| 6635 | M | M.Hpy180ORF7035P (95% identity) | GGCAA | M.HpyLIM3XIV |
| 6640 | R | HpySP09ORF6580P (92% identity) | GGCAA | HpyLIM3XIVP |
| 6645 | rod shape-determining protein MreC | |||
| 6690 | DNA/RNA non-specific endonuclease | |||
| 6695 | M | M.HpyMM06ORF6460P (96% identity) | M.HpyLIM3ORF6695P | |
| 6700 | R | HpyBR15XVIIP (94% identity) | HpyLIM3ORF6695P | |
| 6705 | biotin synthase | |||
| 7295 | class I SAM-dependent DNA methyltransferase | |||
| 7300 | R | HpyME35ORF7260P (94% identity) | HpyLIM3ORF7305P | |
| 7305 | M | M.HpyCOL107ORF7420P (96% identity) | M.HpyLIM3ORF7305P | |
| 7310 | ATP-dependent DNA helicase RecG | |||