Detailed information
Bioinformatically predicted
Overview
| Name | comB2 | Type | Machinery gene |
| Locus tag | HG575_RS04720 | Genome accession | NZ_CP051540 |
| Coordinates | 1004458..1004748 (+) | Length | 96 a.a. |
| NCBI ID | WP_202247577.1 | Uniprot ID | - |
| Organism | Helicobacter pylori strain LIM-002 | ||
| Function | transformation-associated type IV transport system (predicted from homology) DNA binding and uptake |
||
Related MGE
Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.
Gene-MGE association summary
| MGE type | MGE coordinates | Gene coordinates | Relative position | Distance (bp) |
|---|---|---|---|---|
| ICE | 985990..1052786 | 1004458..1004748 | within | 0 |
Gene organization within MGE regions
Location: 985990..1052786
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HG575_RS04620 (HG575_04620) | - | 987558..987920 (+) | 363 | WP_120927849.1 | hypothetical protein | - |
| HG575_RS07855 | - | 988036..988182 (+) | 147 | Protein_910 | branched-chain amino acid aminotransferase I | - |
| HG575_RS04625 (HG575_04625) | - | 988323..989336 (-) | 1014 | WP_202247550.1 | LapA family protein | - |
| HG575_RS04630 (HG575_04630) | rlmH | 989346..989798 (-) | 453 | WP_001203887.1 | 23S rRNA (pseudouridine(1915)-N(3))-methyltransferase RlmH | - |
| HG575_RS04635 (HG575_04635) | accD | 989812..990681 (-) | 870 | WP_100972223.1 | acetyl-CoA carboxylase, carboxyltransferase subunit beta | - |
| HG575_RS04640 (HG575_04640) | recO | 990762..991376 (+) | 615 | WP_202247552.1 | recombination protein RecO | - |
| HG575_RS04645 (HG575_04645) | - | 991387..992043 (+) | 657 | WP_202247553.1 | nicotinamide-nucleotide amidohydrolase family protein | - |
| HG575_RS04650 (HG575_04650) | - | 992046..992612 (-) | 567 | WP_047419173.1 | hypothetical protein | - |
| HG575_RS04655 (HG575_04655) | rdxA | 992677..993309 (-) | 633 | WP_202247555.1 | oxygen-insensitive NAD(P)H-dependent oxidoreductase RdxA | - |
| HG575_RS04660 (HG575_04660) | lgt | 993320..994159 (-) | 840 | WP_202247557.1 | prolipoprotein diacylglyceryl transferase | - |
| HG575_RS04665 (HG575_04665) | - | 994169..994897 (-) | 729 | WP_202247559.1 | RluA family pseudouridine synthase | - |
| HG575_RS04670 (HG575_04670) | waaA | 994909..996090 (-) | 1182 | WP_202247561.1 | lipid IV(A) 3-deoxy-D-manno-octulosonic acid transferase | - |
| HG575_RS04675 (HG575_04675) | - | 996091..996870 (-) | 780 | WP_156583591.1 | zinc ribbon domain-containing protein | - |
| HG575_RS04680 (HG575_04680) | - | 996880..997611 (-) | 732 | WP_202247563.1 | Nif3-like dinuclear metal center hexameric protein | - |
| HG575_RS04685 (HG575_04685) | glyQ | 997613..998509 (-) | 897 | WP_202247565.1 | glycine--tRNA ligase subunit alpha | - |
| HG575_RS04690 (HG575_04690) | - | 998523..999461 (-) | 939 | WP_202247567.1 | NAD(P)H-dependent glycerol-3-phosphate dehydrogenase | - |
| HG575_RS04695 (HG575_04695) | - | 999600..1001207 (-) | 1608 | WP_202247569.1 | dynamin-like GTPase family protein | - |
| HG575_RS04700 (HG575_04700) | - | 1001207..1002916 (-) | 1710 | Protein_926 | dynamin family protein | - |
| HG575_RS04705 (HG575_04705) | - | 1002970..1003758 (+) | 789 | WP_202247571.1 | integrase | - |
| HG575_RS04710 (HG575_04710) | - | 1003779..1003985 (+) | 207 | WP_237419588.1 | hypothetical protein | - |
| HG575_RS04715 (HG575_04715) | - | 1003982..1004461 (+) | 480 | WP_202247575.1 | hypothetical protein | - |
| HG575_RS04720 (HG575_04720) | comB2 | 1004458..1004748 (+) | 291 | WP_202247577.1 | TrbC/VirB2 family protein | Machinery gene |
| HG575_RS04725 (HG575_04725) | comB3 | 1004770..1005033 (+) | 264 | WP_001177721.1 | hypothetical protein | Machinery gene |
| HG575_RS04730 (HG575_04730) | - | 1005045..1005281 (+) | 237 | WP_202247579.1 | hypothetical protein | - |
| HG575_RS04735 (HG575_04735) | - | 1005281..1007845 (+) | 2565 | WP_202247581.1 | VirB4 family type IV secretion/conjugal transfer ATPase | - |
| HG575_RS04740 (HG575_04740) | - | 1007847..1007981 (+) | 135 | WP_078265615.1 | type IV secretion system protein VirB7 | - |
| HG575_RS04745 (HG575_04745) | - | 1007974..1009140 (+) | 1167 | WP_202247583.1 | VirB8/TrbF family protein | - |
| HG575_RS04750 (HG575_04750) | - | 1009137..1010741 (+) | 1605 | WP_202247585.1 | TrbG/VirB9 family P-type conjugative transfer protein | - |
| HG575_RS04755 (HG575_04755) | comB10 | 1010738..1011937 (+) | 1200 | WP_202247587.1 | DNA type IV secretion system protein ComB10 | Machinery gene |
| HG575_RS04760 (HG575_04760) | - | 1011921..1014161 (+) | 2241 | WP_202247589.1 | collagen-like protein | - |
| HG575_RS04765 (HG575_04765) | - | 1014174..1015145 (+) | 972 | WP_202247591.1 | hypothetical protein | - |
| HG575_RS04770 (HG575_04770) | - | 1015162..1015437 (+) | 276 | WP_000883375.1 | hypothetical protein | - |
| HG575_RS04775 (HG575_04775) | - | 1015442..1016386 (+) | 945 | WP_202247593.1 | CpaF/VirB11 family protein | - |
| HG575_RS04780 (HG575_04780) | - | 1016383..1016901 (+) | 519 | WP_000760568.1 | hypothetical protein | - |
| HG575_RS04785 (HG575_04785) | - | 1016898..1019159 (+) | 2262 | WP_202247595.1 | type IV secretory system conjugative DNA transfer family protein | - |
| HG575_RS04790 (HG575_04790) | - | 1019179..1027743 (+) | 8565 | WP_202247597.1 | SNF2-related protein | - |
| HG575_RS04795 (HG575_04795) | - | 1027916..1028080 (+) | 165 | WP_237419589.1 | hypothetical protein | - |
| HG575_RS04800 (HG575_04800) | - | 1028080..1028310 (+) | 231 | WP_128041790.1 | hypothetical protein | - |
| HG575_RS04805 (HG575_04805) | - | 1028310..1028528 (+) | 219 | WP_156541522.1 | hypothetical protein | - |
| HG575_RS04810 (HG575_04810) | - | 1028518..1030578 (+) | 2061 | WP_202247599.1 | type IA DNA topoisomerase | - |
| HG575_RS04815 (HG575_04815) | - | 1030633..1031103 (+) | 471 | WP_000965788.1 | hypothetical protein | - |
| HG575_RS04820 (HG575_04820) | - | 1031073..1031849 (+) | 777 | Protein_950 | nucleotidyl transferase AbiEii/AbiGii toxin family protein | - |
| HG575_RS04825 (HG575_04825) | - | 1031923..1032588 (-) | 666 | WP_202247601.1 | hypothetical protein | - |
| HG575_RS04830 (HG575_04830) | - | 1032566..1032958 (-) | 393 | WP_147798116.1 | hypothetical protein | - |
| HG575_RS04835 (HG575_04835) | - | 1032999..1033667 (-) | 669 | WP_000150827.1 | ParA family protein | - |
| HG575_RS04840 (HG575_04840) | - | 1034481..1034651 (+) | 171 | WP_202247603.1 | hypothetical protein | - |
| HG575_RS04845 (HG575_04845) | - | 1034648..1035691 (+) | 1044 | WP_202247605.1 | ArdC family protein | - |
| HG575_RS04850 (HG575_04850) | - | 1035691..1037487 (+) | 1797 | WP_202247607.1 | hypothetical protein | - |
| HG575_RS04855 (HG575_04855) | - | 1037497..1038930 (+) | 1434 | WP_202247609.1 | hypothetical protein | - |
| HG575_RS04860 (HG575_04860) | - | 1038930..1040186 (+) | 1257 | WP_202247611.1 | type IV secretion system protein | - |
| HG575_RS04865 (HG575_04865) | - | 1040198..1041452 (+) | 1255 | Protein_959 | hypothetical protein | - |
| HG575_RS04870 (HG575_04870) | - | 1041456..1042106 (-) | 651 | WP_187855308.1 | hypothetical protein | - |
| HG575_RS04875 (HG575_04875) | - | 1042328..1043009 (+) | 682 | Protein_961 | CAAX protease | - |
| HG575_RS04880 (HG575_04880) | - | 1043149..1043400 (+) | 252 | WP_202247612.1 | hypothetical protein | - |
| HG575_RS04885 (HG575_04885) | - | 1043372..1044175 (+) | 804 | WP_202247614.1 | nucleotidyl transferase AbiEii/AbiGii toxin family protein | - |
| HG575_RS04890 (HG575_04890) | - | 1044492..1045559 (-) | 1068 | WP_202247616.1 | tyrosine-type recombinase/integrase | - |
| HG575_RS04895 (HG575_04895) | - | 1046700..1048736 (-) | 2037 | WP_202247618.1 | relaxase/mobilization nuclease domain-containing protein | - |
| HG575_RS04900 (HG575_04900) | - | 1049659..1050282 (-) | 624 | Protein_966 | dynamin family protein | - |
| HG575_RS04905 (HG575_04905) | - | 1050284..1051930 (-) | 1647 | WP_202247622.1 | dynamin-like GTPase family protein | - |
| HG575_RS04910 (HG575_04910) | - | 1052467..1052748 (-) | 282 | WP_202247624.1 | DUF3240 family protein | - |
Sequence
Protein
Download Length: 96 a.a. Molecular weight: 10956.26 Da Isoelectric Point: 11.1589
>NTDB_id=439668 HG575_RS04720 WP_202247577.1 1004458..1004748(+) (comB2) [Helicobacter pylori strain LIM-002]
MKKLRHFRKLIAFLGFSPLLLQADITTFFNSIEQQLQSPTGKGILMIIFIAIGIFVWKNLDRWKEILLTILGVVLGTLIF
FKAPSLAQWFMTSVGN
MKKLRHFRKLIAFLGFSPLLLQADITTFFNSIEQQLQSPTGKGILMIIFIAIGIFVWKNLDRWKEILLTILGVVLGTLIF
FKAPSLAQWFMTSVGN
Nucleotide
Download Length: 291 bp
>NTDB_id=439668 HG575_RS04720 WP_202247577.1 1004458..1004748(+) (comB2) [Helicobacter pylori strain LIM-002]
ATGAAAAAATTAAGACATTTTAGAAAGCTTATCGCCTTTTTAGGTTTTTCACCACTTTTATTACAAGCGGATATAACTAC
CTTTTTTAATAGCATTGAGCAACAACTTCAAAGCCCTACAGGTAAGGGCATTTTAATGATTATATTCATTGCTATTGGTA
TTTTTGTGTGGAAAAACTTAGATAGATGGAAAGAAATCTTATTAACTATTTTAGGAGTTGTTTTAGGAACGCTGATATTT
TTTAAAGCCCCATCCTTAGCTCAATGGTTTATGACTAGTGTTGGTAACTAA
ATGAAAAAATTAAGACATTTTAGAAAGCTTATCGCCTTTTTAGGTTTTTCACCACTTTTATTACAAGCGGATATAACTAC
CTTTTTTAATAGCATTGAGCAACAACTTCAAAGCCCTACAGGTAAGGGCATTTTAATGATTATATTCATTGCTATTGGTA
TTTTTGTGTGGAAAAACTTAGATAGATGGAAAGAAATCTTATTAACTATTTTAGGAGTTGTTTTAGGAACGCTGATATTT
TTTAAAGCCCCATCCTTAGCTCAATGGTTTATGACTAGTGTTGGTAACTAA
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| comB2 | Helicobacter pylori 26695 |
60.92 |
90.625 |
0.552 |