Detailed information
Bioinformatically predicted
Overview
| Name | pilD | Type | Machinery gene |
| Locus tag | BAY15_RS15000 | Genome accession | NZ_CP016294 |
| Coordinates | 3369478..3370341 (+) | Length | 287 a.a. |
| NCBI ID | WP_068853817.1 | Uniprot ID | A0AAP6GZC8 |
| Organism | Stenotrophomonas rhizophila strain QL-P4 | ||
| 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 | 3347303..3378064 | 3369478..3370341 | within | 0 |
Gene organization within MGE regions
Location: 3347303..3378064
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BAY15_RS14900 (BAY15_2919) | - | 3347303..3347851 (+) | 549 | WP_068853797.1 | SymE family type I addiction module toxin | - |
| BAY15_RS14905 (BAY15_2920) | - | 3348043..3348744 (-) | 702 | WP_167693304.1 | hypothetical protein | - |
| BAY15_RS18945 | - | 3349269..3349496 (-) | 228 | WP_083214200.1 | hypothetical protein | - |
| BAY15_RS14910 (BAY15_2921) | - | 3349723..3350052 (-) | 330 | WP_157771754.1 | hypothetical protein | - |
| BAY15_RS14915 (BAY15_2922) | - | 3350045..3350452 (-) | 408 | WP_068853800.1 | hypothetical protein | - |
| BAY15_RS14920 (BAY15_2923) | - | 3350650..3351126 (-) | 477 | WP_157771755.1 | hypothetical protein | - |
| BAY15_RS14925 | - | 3351518..3352000 (-) | 483 | WP_068853802.1 | hypothetical protein | - |
| BAY15_RS14930 (BAY15_2924) | - | 3352209..3352571 (-) | 363 | WP_157771756.1 | hypothetical protein | - |
| BAY15_RS19245 | - | 3353217..3353489 (-) | 273 | WP_157771757.1 | hypothetical protein | - |
| BAY15_RS14935 | - | 3354453..3354749 (-) | 297 | WP_157771758.1 | hypothetical protein | - |
| BAY15_RS19250 | - | 3354749..3354967 (-) | 219 | WP_157771759.1 | hypothetical protein | - |
| BAY15_RS19255 | - | 3355351..3355707 (-) | 357 | WP_157771760.1 | hypothetical protein | - |
| BAY15_RS14945 (BAY15_2926) | - | 3355819..3356037 (-) | 219 | WP_157771761.1 | hypothetical protein | - |
| BAY15_RS14950 (BAY15_2927) | - | 3357011..3357385 (-) | 375 | WP_157771762.1 | DUF6869 domain-containing protein | - |
| BAY15_RS14955 (BAY15_2928) | - | 3357844..3358548 (-) | 705 | WP_157771763.1 | hypothetical protein | - |
| BAY15_RS14960 (BAY15_2929) | - | 3358642..3359421 (-) | 780 | WP_068853809.1 | hypothetical protein | - |
| BAY15_RS19260 | - | 3359443..3359823 (-) | 381 | WP_157771764.1 | hypothetical protein | - |
| BAY15_RS14965 (BAY15_2930) | - | 3360307..3360837 (-) | 531 | WP_157771765.1 | hypothetical protein | - |
| BAY15_RS14975 (BAY15_2931) | - | 3361810..3364848 (-) | 3039 | WP_068853812.1 | hypothetical protein | - |
| BAY15_RS14980 (BAY15_2932) | pilB | 3365132..3366865 (-) | 1734 | WP_068853813.1 | type IV-A pilus assembly ATPase PilB | Machinery gene |
| BAY15_RS14985 (BAY15_2933) | pilA/pilAI | 3366922..3367332 (-) | 411 | WP_068853814.1 | pilin | Machinery gene |
| BAY15_RS14990 (BAY15_2934) | pilA/pilAI | 3367451..3367858 (-) | 408 | WP_068853815.1 | pilin | Machinery gene |
| BAY15_RS14995 (BAY15_2935) | pilC | 3368215..3369471 (+) | 1257 | WP_068853816.1 | type II secretion system F family protein | Machinery gene |
| BAY15_RS15000 (BAY15_2936) | pilD | 3369478..3370341 (+) | 864 | WP_068853817.1 | A24 family peptidase | Machinery gene |
| BAY15_RS15005 (BAY15_2937) | coaE | 3370349..3370966 (+) | 618 | WP_068853818.1 | dephospho-CoA kinase | - |
| BAY15_RS15010 | - | 3370963..3371304 (-) | 342 | WP_237334272.1 | hypothetical protein | - |
| BAY15_RS15020 (BAY15_2938) | - | 3371773..3372258 (-) | 486 | WP_068853820.1 | hypothetical protein | - |
| BAY15_RS15025 (BAY15_2939) | - | 3372458..3373825 (-) | 1368 | WP_068853821.1 | HAMP domain-containing sensor histidine kinase | - |
| BAY15_RS15030 (BAY15_2940) | - | 3373788..3374465 (-) | 678 | WP_017356179.1 | response regulator transcription factor | - |
| BAY15_RS15035 (BAY15_2941) | - | 3374474..3374947 (-) | 474 | WP_068853822.1 | hypothetical protein | - |
| BAY15_RS15040 (BAY15_2942) | rimK | 3375180..3376085 (-) | 906 | WP_068853823.1 | 30S ribosomal protein S6--L-glutamate ligase | - |
| BAY15_RS15045 (BAY15_2943) | - | 3376343..3376729 (+) | 387 | WP_208856107.1 | hypothetical protein | - |
| BAY15_RS15050 (BAY15_2944) | - | 3376733..3377704 (+) | 972 | WP_068853825.1 | RES family NAD+ phosphorylase | - |
| BAY15_RS15055 (BAY15_2945) | - | 3377711..3378064 (-) | 354 | WP_068853826.1 | nuclear transport factor 2 family protein | - |
Sequence
Protein
Download Length: 287 a.a. Molecular weight: 31733.82 Da Isoelectric Point: 8.4749
>NTDB_id=186567 BAY15_RS15000 WP_068853817.1 3369478..3370341(+) (pilD) [Stenotrophomonas rhizophila strain QL-P4]
MAFLDQHPGLGYPAAAALGLLIGSFLNVVILRLPKRLEWQWKRDAREVLELPDIYEPPPPGIVVEPSHCPHCKHKLSWYE
NIPLFSWLVLGGKCRHCHAPISIQYPLVELLTGLLVVASVWQFGFGWQGFGAIVLSCFLVALSGIDLRTQLLPDQLTLPL
MWLGLIGSIDNLYMPAKPALLGAIAGYLLLWSVWWLFKQITGKEGIGHGDFKLLAALGAWCGLKGILPIILLSSVLGAII
GSIWLYSRGRDRATPIPFGPYLALAGWIVFMWGEPLINAYLRVSGLR
MAFLDQHPGLGYPAAAALGLLIGSFLNVVILRLPKRLEWQWKRDAREVLELPDIYEPPPPGIVVEPSHCPHCKHKLSWYE
NIPLFSWLVLGGKCRHCHAPISIQYPLVELLTGLLVVASVWQFGFGWQGFGAIVLSCFLVALSGIDLRTQLLPDQLTLPL
MWLGLIGSIDNLYMPAKPALLGAIAGYLLLWSVWWLFKQITGKEGIGHGDFKLLAALGAWCGLKGILPIILLSSVLGAII
GSIWLYSRGRDRATPIPFGPYLALAGWIVFMWGEPLINAYLRVSGLR
Nucleotide
Download Length: 864 bp
>NTDB_id=186567 BAY15_RS15000 WP_068853817.1 3369478..3370341(+) (pilD) [Stenotrophomonas rhizophila strain QL-P4]
ATGGCATTTCTCGACCAGCATCCCGGCCTCGGCTATCCGGCCGCGGCCGCACTGGGGTTGCTGATTGGCAGCTTCCTCAA
TGTGGTGATCCTGCGCCTGCCCAAGCGGCTGGAGTGGCAGTGGAAGCGCGACGCCCGCGAGGTGCTCGAGCTTCCGGACA
TCTACGAACCACCCCCGCCCGGGATCGTGGTCGAGCCGTCGCACTGCCCGCACTGCAAGCACAAGCTGTCCTGGTACGAG
AACATCCCGCTGTTCAGCTGGTTGGTCCTGGGCGGCAAGTGCCGCCACTGCCATGCGCCGATCTCCATCCAGTACCCGCT
GGTCGAGCTGTTGACCGGCCTGCTGGTGGTGGCCAGCGTCTGGCAGTTCGGCTTTGGCTGGCAGGGCTTTGGCGCCATCG
TGCTGAGCTGCTTCCTGGTGGCCTTGTCCGGTATCGACCTGCGCACCCAGTTGTTGCCTGACCAGCTCACCCTGCCGCTG
ATGTGGCTGGGGCTGATAGGCAGCATCGACAACCTGTACATGCCGGCCAAGCCTGCCCTGCTGGGCGCGATAGCCGGCTA
CCTGCTGCTGTGGTCGGTGTGGTGGCTGTTCAAGCAGATCACCGGCAAGGAAGGCATTGGTCACGGCGATTTCAAGCTGC
TGGCCGCGCTGGGCGCCTGGTGTGGGTTGAAGGGCATCCTGCCGATCATCCTGCTCTCGTCGGTGCTTGGGGCGATCATC
GGTTCGATCTGGCTGTACTCGCGCGGCCGCGACCGAGCCACGCCGATTCCGTTCGGGCCCTACCTGGCCCTGGCGGGCTG
GATCGTGTTCATGTGGGGCGAGCCGTTGATCAACGCGTATCTGCGGGTGTCCGGCCTGCGCTGA
ATGGCATTTCTCGACCAGCATCCCGGCCTCGGCTATCCGGCCGCGGCCGCACTGGGGTTGCTGATTGGCAGCTTCCTCAA
TGTGGTGATCCTGCGCCTGCCCAAGCGGCTGGAGTGGCAGTGGAAGCGCGACGCCCGCGAGGTGCTCGAGCTTCCGGACA
TCTACGAACCACCCCCGCCCGGGATCGTGGTCGAGCCGTCGCACTGCCCGCACTGCAAGCACAAGCTGTCCTGGTACGAG
AACATCCCGCTGTTCAGCTGGTTGGTCCTGGGCGGCAAGTGCCGCCACTGCCATGCGCCGATCTCCATCCAGTACCCGCT
GGTCGAGCTGTTGACCGGCCTGCTGGTGGTGGCCAGCGTCTGGCAGTTCGGCTTTGGCTGGCAGGGCTTTGGCGCCATCG
TGCTGAGCTGCTTCCTGGTGGCCTTGTCCGGTATCGACCTGCGCACCCAGTTGTTGCCTGACCAGCTCACCCTGCCGCTG
ATGTGGCTGGGGCTGATAGGCAGCATCGACAACCTGTACATGCCGGCCAAGCCTGCCCTGCTGGGCGCGATAGCCGGCTA
CCTGCTGCTGTGGTCGGTGTGGTGGCTGTTCAAGCAGATCACCGGCAAGGAAGGCATTGGTCACGGCGATTTCAAGCTGC
TGGCCGCGCTGGGCGCCTGGTGTGGGTTGAAGGGCATCCTGCCGATCATCCTGCTCTCGTCGGTGCTTGGGGCGATCATC
GGTTCGATCTGGCTGTACTCGCGCGGCCGCGACCGAGCCACGCCGATTCCGTTCGGGCCCTACCTGGCCCTGGCGGGCTG
GATCGTGTTCATGTGGGGCGAGCCGTTGATCAACGCGTATCTGCGGGTGTCCGGCCTGCGCTGA
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| pilD | Acinetobacter baumannii D1279779 |
48.264 |
100 |
0.484 |
| pilD | Acinetobacter nosocomialis M2 |
48.41 |
98.606 |
0.477 |
| pilD | Vibrio campbellii strain DS40M4 |
46.479 |
98.955 |
0.46 |
| pilD | Vibrio cholerae strain A1552 |
47.292 |
96.516 |
0.456 |
| pilD | Neisseria gonorrhoeae MS11 |
44.043 |
96.516 |
0.425 |