Detailed information
Bioinformatically predicted
Overview
| Name | comP | Type | Machinery gene |
| Locus tag | GDM11_RS05505 | Genome accession | NZ_AP019684 |
| Coordinates | 1246979..1247392 (+) | Length | 137 a.a. |
| NCBI ID | WP_012437602.1 | Uniprot ID | - |
| Organism | Xanthomonas campestris pv. campestris strain MAFF302021 | ||
| 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 | 1199923..1251326 | 1246979..1247392 | within | 0 |
Gene organization within MGE regions
Location: 1199923..1251326
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| GDM11_RS05255 (Xcc3_10330) | - | 1201527..1201955 (+) | 429 | WP_145998822.1 | hypothetical protein | - |
| GDM11_RS05260 (Xcc3_10340) | - | 1202340..1203128 (-) | 789 | WP_145998823.1 | hypothetical protein | - |
| GDM11_RS05265 | - | 1203202..1204095 (-) | 894 | WP_145998824.1 | hypothetical protein | - |
| GDM11_RS05270 (Xcc3_10350) | - | 1204261..1204641 (-) | 381 | WP_172973787.1 | hypothetical protein | - |
| GDM11_RS05275 (Xcc3_10360) | - | 1204638..1204952 (-) | 315 | WP_100666315.1 | hypothetical protein | - |
| GDM11_RS05280 (Xcc3_10370) | - | 1205002..1205763 (-) | 762 | WP_100666316.1 | hypothetical protein | - |
| GDM11_RS05285 (Xcc3_10380) | - | 1205941..1206240 (+) | 300 | WP_230428394.1 | helix-turn-helix domain-containing protein | - |
| GDM11_RS05290 (Xcc3_10390) | - | 1206252..1206740 (+) | 489 | WP_230431642.1 | ADP-dependent glucokinase/phosphofructokinase | - |
| GDM11_RS05295 (Xcc3_10400) | - | 1206745..1207197 (-) | 453 | WP_145998825.1 | hypothetical protein | - |
| GDM11_RS05300 (Xcc3_10410) | - | 1207400..1208800 (-) | 1401 | WP_100666320.1 | site-specific integrase | - |
| GDM11_RS05305 (Xcc3_10420) | - | 1209410..1209925 (-) | 516 | WP_100666321.1 | hypothetical protein | - |
| GDM11_RS05310 (Xcc3_10430) | - | 1210014..1210499 (+) | 486 | WP_145998826.1 | hypothetical protein | - |
| GDM11_RS05315 (Xcc3_10440) | - | 1210632..1212116 (-) | 1485 | WP_100666322.1 | hypothetical protein | - |
| GDM11_RS05320 (Xcc3_10450) | - | 1212196..1213161 (-) | 966 | WP_145998827.1 | hypothetical protein | - |
| GDM11_RS05325 (Xcc3_10460) | - | 1213551..1213811 (+) | 261 | WP_145998828.1 | hypothetical protein | - |
| GDM11_RS05330 (Xcc3_10470) | - | 1213798..1214295 (-) | 498 | WP_152091502.1 | hypothetical protein | - |
| GDM11_RS05335 (Xcc3_10480) | - | 1214405..1214935 (-) | 531 | WP_152091503.1 | hypothetical protein | - |
| GDM11_RS05340 (Xcc3_10490) | - | 1214970..1215782 (-) | 813 | WP_152091504.1 | AbiJ-NTD4 domain-containing protein | - |
| GDM11_RS05345 (Xcc3_10500) | - | 1215779..1216087 (-) | 309 | WP_152091505.1 | hypothetical protein | - |
| GDM11_RS05350 (Xcc3_10510) | - | 1216298..1216777 (+) | 480 | WP_152091506.1 | JAB domain-containing protein | - |
| GDM11_RS22890 (Xcc3_10520) | - | 1216846..1217022 (+) | 177 | WP_172973789.1 | hypothetical protein | - |
| GDM11_RS05355 (Xcc3_10530) | - | 1217242..1217883 (+) | 642 | WP_152091507.1 | DUF1629 domain-containing protein | - |
| GDM11_RS05360 (Xcc3_10540) | - | 1217919..1220477 (+) | 2559 | WP_152091508.1 | XVIPCD domain-containing protein | - |
| GDM11_RS05365 (Xcc3_10550) | - | 1220487..1221589 (-) | 1103 | Protein_1003 | IS3-like element IS1404 family transposase | - |
| GDM11_RS05370 (Xcc3_10570) | - | 1222114..1222752 (-) | 639 | WP_232053528.1 | hypothetical protein | - |
| GDM11_RS05375 (Xcc3_10580) | - | 1223036..1223542 (-) | 507 | WP_230428396.1 | hypothetical protein | - |
| GDM11_RS05380 (Xcc3_10590) | - | 1223619..1224254 (+) | 636 | WP_230428397.1 | hypothetical protein | - |
| GDM11_RS22895 (Xcc3_10600) | - | 1224372..1224530 (+) | 159 | WP_172973790.1 | hypothetical protein | - |
| GDM11_RS05390 (Xcc3_10650) | - | 1226598..1227074 (-) | 477 | WP_152091510.1 | hypothetical protein | - |
| GDM11_RS05395 (Xcc3_10660) | - | 1227235..1229208 (-) | 1974 | WP_152091511.1 | ATP-dependent nuclease | - |
| GDM11_RS05405 (Xcc3_10670) | - | 1229744..1230043 (-) | 300 | WP_100666201.1 | conjugal transfer protein TraD | - |
| GDM11_RS05410 (Xcc3_10680) | - | 1230310..1231905 (+) | 1596 | WP_100666199.1 | MobA/MobL family protein | - |
| GDM11_RS05415 (Xcc3_10690) | - | 1231958..1232299 (-) | 342 | WP_100666197.1 | hypothetical protein | - |
| GDM11_RS05420 | - | 1232993..1233421 (+) | 429 | WP_012437589.1 | hypothetical protein | - |
| GDM11_RS22900 (Xcc3_10710) | - | 1233664..1233894 (-) | 231 | WP_157382680.1 | hypothetical protein | - |
| GDM11_RS05425 (Xcc3_10720) | - | 1233958..1234104 (+) | 147 | WP_040940792.1 | hypothetical protein | - |
| GDM11_RS05430 (Xcc3_10730) | - | 1234289..1234684 (+) | 396 | WP_016945003.1 | hypothetical protein | - |
| GDM11_RS05435 (Xcc3_10740) | - | 1234775..1235167 (+) | 393 | WP_012437593.1 | H-NS family nucleoid-associated regulatory protein | - |
| GDM11_RS05445 (Xcc3_10750) | glgX | 1235701..1237830 (-) | 2130 | WP_011038223.1 | glycogen debranching protein GlgX | - |
| GDM11_RS05450 (Xcc3_10760) | rimK | 1238324..1239199 (+) | 876 | WP_016945000.1 | 30S ribosomal protein S6--L-glutamate ligase | - |
| GDM11_RS05455 (Xcc3_10770) | - | 1239422..1239895 (+) | 474 | WP_012437597.1 | hypothetical protein | - |
| GDM11_RS05460 (Xcc3_10780) | - | 1239926..1240603 (+) | 678 | WP_003490678.1 | response regulator transcription factor | - |
| GDM11_RS05465 (Xcc3_10790) | - | 1240596..1241930 (+) | 1335 | WP_012437598.1 | sensor histidine kinase | - |
| GDM11_RS05470 (Xcc3_10800) | - | 1242073..1242564 (-) | 492 | WP_011038220.1 | GNAT family N-acetyltransferase | - |
| GDM11_RS05475 (Xcc3_10810) | - | 1242561..1242851 (-) | 291 | WP_011038219.1 | DUF1778 domain-containing protein | - |
| GDM11_RS05480 (Xcc3_10820) | - | 1242926..1243327 (-) | 402 | WP_012437599.1 | SymE family type I addiction module toxin | - |
| GDM11_RS05490 (Xcc3_10830) | coaE | 1243859..1244482 (-) | 624 | WP_011038217.1 | dephospho-CoA kinase | - |
| GDM11_RS05495 (Xcc3_10840) | - | 1244496..1245359 (-) | 864 | WP_012437600.1 | prepilin peptidase | - |
| GDM11_RS05500 | - | 1245366..1246627 (-) | 1262 | Protein_1029 | type II secretion system F family protein | - |
| GDM11_RS05505 (Xcc3_10870) | comP | 1246979..1247392 (+) | 414 | WP_012437602.1 | pilin | Machinery gene |
| GDM11_RS05510 (Xcc3_10880) | - | 1247611..1249122 (+) | 1512 | WP_256729490.1 | phosphoethanolamine transferase | - |
| GDM11_RS05515 (Xcc3_10890) | - | 1249133..1249762 (+) | 630 | WP_012437604.1 | hypothetical protein | - |
| GDM11_RS23760 | - | 1249732..1251326 (+) | 1595 | Protein_1033 | spermidine synthase | - |
Sequence
Protein
Download Length: 137 a.a. Molecular weight: 14030.15 Da Isoelectric Point: 8.4883
>NTDB_id=73220 GDM11_RS05505 WP_012437602.1 1246979..1247392(+) (comP) [Xanthomonas campestris pv. campestris strain MAFF302021]
MKKQQGFTLIELMIVVAIIAILAAIALPAYQDYTIRSRVSEMAVLASGAKATIGENIANENAINANACRGVATFNTATTN
TASLACANGTVTVTGTAKAANVVLTYAPTLVDAGIRWTCSSASAAKYLPAECRGSGT
MKKQQGFTLIELMIVVAIIAILAAIALPAYQDYTIRSRVSEMAVLASGAKATIGENIANENAINANACRGVATFNTATTN
TASLACANGTVTVTGTAKAANVVLTYAPTLVDAGIRWTCSSASAAKYLPAECRGSGT
Nucleotide
Download Length: 414 bp
>NTDB_id=73220 GDM11_RS05505 WP_012437602.1 1246979..1247392(+) (comP) [Xanthomonas campestris pv. campestris strain MAFF302021]
ATGAAGAAGCAGCAAGGCTTTACACTTATCGAACTGATGATCGTGGTCGCGATCATCGCTATCCTGGCCGCCATCGCGCT
GCCGGCTTATCAGGATTACACCATTCGCTCGCGTGTCTCTGAAATGGCTGTGCTCGCCTCCGGTGCCAAGGCGACAATTG
GTGAGAATATTGCCAATGAGAATGCGATTAATGCTAATGCGTGCCGCGGAGTTGCTACTTTTAACACCGCCACGACGAAC
ACTGCTTCCCTCGCGTGTGCCAACGGTACTGTCACTGTCACTGGTACGGCTAAGGCTGCGAACGTCGTTCTGACCTACGC
TCCGACCCTTGTGGACGCTGGCATCAGGTGGACCTGTTCGTCTGCCAGTGCGGCTAAGTACCTGCCGGCCGAATGCCGTG
GTTCGGGCACCTAA
ATGAAGAAGCAGCAAGGCTTTACACTTATCGAACTGATGATCGTGGTCGCGATCATCGCTATCCTGGCCGCCATCGCGCT
GCCGGCTTATCAGGATTACACCATTCGCTCGCGTGTCTCTGAAATGGCTGTGCTCGCCTCCGGTGCCAAGGCGACAATTG
GTGAGAATATTGCCAATGAGAATGCGATTAATGCTAATGCGTGCCGCGGAGTTGCTACTTTTAACACCGCCACGACGAAC
ACTGCTTCCCTCGCGTGTGCCAACGGTACTGTCACTGTCACTGGTACGGCTAAGGCTGCGAACGTCGTTCTGACCTACGC
TCCGACCCTTGTGGACGCTGGCATCAGGTGGACCTGTTCGTCTGCCAGTGCGGCTAAGTACCTGCCGGCCGAATGCCGTG
GTTCGGGCACCTAA
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| comP | Acinetobacter baylyi ADP1 |
48.322 |
100 |
0.526 |
| pilA | Ralstonia pseudosolanacearum GMI1000 |
42.945 |
100 |
0.511 |
| pilA2 | Legionella pneumophila str. Paris |
50.746 |
97.81 |
0.496 |
| pilA2 | Legionella pneumophila strain ERS1305867 |
50 |
97.81 |
0.489 |
| pilA/pilA1 | Eikenella corrodens VA1 |
39.073 |
100 |
0.431 |
| pilE | Neisseria gonorrhoeae strain FA1090 |
37.662 |
100 |
0.423 |
| pilA/pilAI | Pseudomonas stutzeri DSM 10701 |
41.007 |
100 |
0.416 |
| pilE | Neisseria gonorrhoeae MS11 |
36.774 |
100 |
0.416 |
| pilA | Vibrio parahaemolyticus RIMD 2210633 |
43.2 |
91.241 |
0.394 |
| pilA | Pseudomonas aeruginosa PAK |
35.333 |
100 |
0.387 |
| pilA | Acinetobacter baumannii strain A118 |
36.301 |
100 |
0.387 |
| pilA | Haemophilus influenzae Rd KW20 |
38.129 |
100 |
0.387 |
| pilA | Haemophilus influenzae 86-028NP |
38.129 |
100 |
0.387 |
| pilA/pilAII | Pseudomonas stutzeri DSM 10701 |
37.41 |
100 |
0.38 |