Detailed information
Bioinformatically predicted
Overview
| Name | comP | Type | Machinery gene |
| Locus tag | QMY62_RS05685 | Genome accession | NZ_CP125656 |
| Coordinates | 1352237..1352668 (+) | Length | 143 a.a. |
| NCBI ID | WP_024939397.1 | Uniprot ID | - |
| Organism | Xanthomonas campestris strain GBBC 3139 | ||
| Function | assembly of type IV pilus (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) |
|---|---|---|---|---|
| Genomic island | 1309668..1362762 | 1352237..1352668 | within | 0 |
Gene organization within MGE regions
Location: 1309668..1362762
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| QMY62_RS05495 (QMY62_05495) | - | 1311224..1311970 (-) | 747 | WP_167766520.1 | hypothetical protein | - |
| QMY62_RS05500 (QMY62_05500) | - | 1311986..1312849 (-) | 864 | WP_167766519.1 | hypothetical protein | - |
| QMY62_RS05505 (QMY62_05505) | - | 1313320..1313700 (-) | 381 | WP_209271700.1 | hypothetical protein | - |
| QMY62_RS05510 (QMY62_05510) | - | 1313697..1314011 (-) | 315 | WP_283269132.1 | hypothetical protein | - |
| QMY62_RS05515 (QMY62_05515) | - | 1314054..1314815 (-) | 762 | WP_283269134.1 | hypothetical protein | - |
| QMY62_RS05520 (QMY62_05520) | - | 1314917..1315258 (+) | 342 | WP_167766516.1 | helix-turn-helix transcriptional regulator | - |
| QMY62_RS05525 (QMY62_05525) | dndC | 1315429..1316559 (+) | 1131 | WP_167766515.1 | DNA phosphorothioation system sulfurtransferase DndC | - |
| QMY62_RS21800 | - | 1316580..1316795 (+) | 216 | WP_167766514.1 | DNA modification system-associated small protein | - |
| QMY62_RS05530 (QMY62_05530) | dndD | 1316785..1318863 (+) | 2079 | WP_167766513.1 | DNA sulfur modification protein DndD | - |
| QMY62_RS05535 (QMY62_05535) | - | 1318865..1320394 (+) | 1530 | WP_209271699.1 | DndE family protein | - |
| QMY62_RS05540 (QMY62_05540) | - | 1320421..1320756 (+) | 336 | WP_167766512.1 | hypothetical protein | - |
| QMY62_RS05545 (QMY62_05545) | - | 1320939..1322183 (-) | 1245 | Protein_1070 | site-specific integrase | - |
| QMY62_RS05550 (QMY62_05550) | - | 1322249..1323351 (+) | 1103 | Protein_1071 | IS3-like element IS1404 family transposase | - |
| QMY62_RS05555 (QMY62_05555) | - | 1323385..1323543 (-) | 159 | Protein_1072 | integrase | - |
| QMY62_RS05560 (QMY62_05560) | - | 1324089..1324304 (+) | 216 | WP_167766510.1 | hypothetical protein | - |
| QMY62_RS05565 (QMY62_05565) | radC | 1324628..1325191 (+) | 564 | WP_283269635.1 | DNA repair protein RadC | - |
| QMY62_RS05570 (QMY62_05570) | - | 1325330..1325926 (+) | 597 | WP_345782097.1 | DUF1629 domain-containing protein | - |
| QMY62_RS05575 (QMY62_05575) | - | 1325960..1329982 (+) | 4023 | WP_283269140.1 | hypothetical protein | - |
| QMY62_RS05580 (QMY62_05580) | - | 1330022..1330672 (+) | 651 | WP_167766506.1 | hypothetical protein | - |
| QMY62_RS05585 (QMY62_05585) | - | 1331021..1332973 (+) | 1953 | WP_283269142.1 | hypothetical protein | - |
| QMY62_RS05590 (QMY62_05590) | - | 1333027..1334253 (+) | 1227 | WP_167766504.1 | hypothetical protein | - |
| QMY62_RS05600 (QMY62_05600) | - | 1335651..1337246 (+) | 1596 | WP_345782102.1 | MobA/MobL family protein | - |
| QMY62_RS05605 (QMY62_05605) | - | 1337299..1337640 (-) | 342 | WP_283269146.1 | hypothetical protein | - |
| QMY62_RS05610 (QMY62_05610) | - | 1338297..1338713 (+) | 417 | WP_283269148.1 | hypothetical protein | - |
| QMY62_RS05615 (QMY62_05615) | - | 1339003..1339233 (-) | 231 | WP_283269150.1 | hypothetical protein | - |
| QMY62_RS05620 (QMY62_05620) | - | 1339297..1339443 (+) | 147 | WP_116889157.1 | hypothetical protein | - |
| QMY62_RS05625 (QMY62_05625) | - | 1339628..1340023 (+) | 396 | WP_011038225.1 | hypothetical protein | - |
| QMY62_RS05630 (QMY62_05630) | - | 1340114..1340506 (+) | 393 | WP_011038224.1 | H-NS family nucleoid-associated regulatory protein | - |
| QMY62_RS05635 (QMY62_05635) | glgX | 1341045..1343174 (-) | 2130 | WP_283269153.1 | glycogen debranching protein GlgX | - |
| QMY62_RS05640 (QMY62_05640) | rimK | 1343667..1344542 (+) | 876 | WP_011038222.1 | 30S ribosomal protein S6--L-glutamate ligase | - |
| QMY62_RS05645 (QMY62_05645) | - | 1345192..1345869 (+) | 678 | WP_003490678.1 | response regulator transcription factor | - |
| QMY62_RS05650 (QMY62_05650) | - | 1345862..1347196 (+) | 1335 | WP_012437598.1 | HAMP domain-containing sensor histidine kinase | - |
| QMY62_RS05655 (QMY62_05655) | - | 1347339..1347830 (-) | 492 | WP_223646366.1 | GNAT family N-acetyltransferase | - |
| QMY62_RS05660 (QMY62_05660) | - | 1347827..1348117 (-) | 291 | WP_011038219.1 | DUF1778 domain-containing protein | - |
| QMY62_RS05665 (QMY62_05665) | - | 1348193..1348594 (-) | 402 | WP_283269159.1 | SymE family type I addiction module toxin | - |
| QMY62_RS05670 (QMY62_05670) | coaE | 1349123..1349746 (-) | 624 | WP_228424129.1 | dephospho-CoA kinase | - |
| QMY62_RS05675 (QMY62_05675) | - | 1349760..1350623 (-) | 864 | WP_040940797.1 | A24 family peptidase | - |
| QMY62_RS05680 (QMY62_05680) | pilC | 1350630..1351832 (-) | 1203 | WP_283269162.1 | type II secretion system F family protein | Machinery gene |
| QMY62_RS05685 (QMY62_05685) | comP | 1352237..1352668 (+) | 432 | WP_024939397.1 | pilin | Machinery gene |
| QMY62_RS05690 (QMY62_05690) | - | 1352765..1353178 (+) | 414 | WP_283269165.1 | pilin | - |
| QMY62_RS05695 (QMY62_05695) | pilB | 1353220..1354953 (+) | 1734 | WP_283269167.1 | type IV-A pilus assembly ATPase PilB | Machinery gene |
| QMY62_RS05700 (QMY62_05700) | - | 1355136..1355873 (-) | 738 | WP_283269169.1 | zeta toxin family protein | - |
| QMY62_RS05705 (QMY62_05705) | - | 1355873..1356235 (-) | 363 | WP_217694196.1 | hypothetical protein | - |
| QMY62_RS05710 (QMY62_05710) | - | 1356427..1357820 (-) | 1394 | Protein_1103 | sigma-54 dependent transcriptional regulator | - |
| QMY62_RS05715 (QMY62_05715) | - | 1358029..1359639 (-) | 1611 | WP_283269172.1 | HAMP domain-containing sensor histidine kinase | - |
| QMY62_RS05720 (QMY62_05720) | sucC | 1359873..1361042 (+) | 1170 | WP_012437609.1 | ADP-forming succinate--CoA ligase subunit beta | - |
| QMY62_RS05725 (QMY62_05725) | sucD | 1361067..1361942 (+) | 876 | WP_011038208.1 | succinate--CoA ligase subunit alpha | - |
| QMY62_RS05730 (QMY62_05730) | - | 1362046..1362456 (+) | 411 | WP_029217117.1 | DNA-binding protein | - |
| QMY62_RS05735 (QMY62_05735) | - | 1362460..1362762 (+) | 303 | WP_011038207.1 | type II toxin-antitoxin system RelE/ParE family toxin | - |
Sequence
Protein
Download Length: 143 a.a. Molecular weight: 14594.80 Da Isoelectric Point: 8.4781
>NTDB_id=832116 QMY62_RS05685 WP_024939397.1 1352237..1352668(+) (comP) [Xanthomonas campestris strain GBBC 3139]
MKKQQGFTLIELMIVVAIIAILAAIALPAYQDYTIRSRVSELAVMASSFKTTVAENIANNGGALPADACVGVGATAATTN
MASIACTPASGNIVVTGDATKTKGTILTYAPTIPAAGNSAVGTTWTCTGSGSQTKYYPAECRR
MKKQQGFTLIELMIVVAIIAILAAIALPAYQDYTIRSRVSELAVMASSFKTTVAENIANNGGALPADACVGVGATAATTN
MASIACTPASGNIVVTGDATKTKGTILTYAPTIPAAGNSAVGTTWTCTGSGSQTKYYPAECRR
Nucleotide
Download Length: 432 bp
>NTDB_id=832116 QMY62_RS05685 WP_024939397.1 1352237..1352668(+) (comP) [Xanthomonas campestris strain GBBC 3139]
ATGAAGAAGCAACAAGGCTTTACCCTGATCGAACTGATGATCGTTGTTGCGATCATCGCCATCCTAGCCGCCATCGCGCT
TCCGGCGTATCAGGACTACACCATTCGCTCGCGCGTCTCGGAACTGGCTGTGATGGCTAGCTCCTTCAAGACCACCGTCG
CAGAAAATATAGCTAACAACGGCGGCGCTTTGCCGGCTGATGCTTGCGTGGGTGTTGGTGCTACGGCTGCGACTACCAAC
ATGGCGTCCATCGCCTGTACTCCCGCTTCTGGCAATATCGTTGTTACCGGTGATGCAACCAAAACTAAGGGTACGATTTT
GACCTACGCGCCCACCATTCCTGCGGCGGGCAACTCTGCGGTTGGTACGACCTGGACGTGCACGGGTAGCGGTAGCCAGA
CAAAGTACTATCCGGCTGAGTGCCGCCGCTAA
ATGAAGAAGCAACAAGGCTTTACCCTGATCGAACTGATGATCGTTGTTGCGATCATCGCCATCCTAGCCGCCATCGCGCT
TCCGGCGTATCAGGACTACACCATTCGCTCGCGCGTCTCGGAACTGGCTGTGATGGCTAGCTCCTTCAAGACCACCGTCG
CAGAAAATATAGCTAACAACGGCGGCGCTTTGCCGGCTGATGCTTGCGTGGGTGTTGGTGCTACGGCTGCGACTACCAAC
ATGGCGTCCATCGCCTGTACTCCCGCTTCTGGCAATATCGTTGTTACCGGTGATGCAACCAAAACTAAGGGTACGATTTT
GACCTACGCGCCCACCATTCCTGCGGCGGGCAACTCTGCGGTTGGTACGACCTGGACGTGCACGGGTAGCGGTAGCCAGA
CAAAGTACTATCCGGCTGAGTGCCGCCGCTAA
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| comP | Acinetobacter baylyi ADP1 |
53.595 |
100 |
0.573 |
| pilA2 | Legionella pneumophila str. Paris |
55.634 |
99.301 |
0.552 |
| pilA2 | Legionella pneumophila strain ERS1305867 |
54.93 |
99.301 |
0.545 |
| pilA | Ralstonia pseudosolanacearum GMI1000 |
40.244 |
100 |
0.462 |
| pilA | Vibrio campbellii strain DS40M4 |
41.611 |
100 |
0.434 |
| pilA | Pseudomonas aeruginosa PAK |
37.342 |
100 |
0.413 |
| pilA/pilA1 | Eikenella corrodens VA1 |
38.816 |
100 |
0.413 |
| pilA/pilAI | Pseudomonas stutzeri DSM 10701 |
40.278 |
100 |
0.406 |
| pilA | Haemophilus influenzae 86-028NP |
39.161 |
100 |
0.392 |
| pilA | Haemophilus influenzae Rd KW20 |
38.462 |
100 |
0.385 |
| pilA/pilAII | Pseudomonas stutzeri DSM 10701 |
37.241 |
100 |
0.378 |
| pilA | Glaesserella parasuis strain SC1401 |
37.063 |
100 |
0.371 |
| pilA | Vibrio parahaemolyticus RIMD 2210633 |
41.085 |
90.21 |
0.371 |