Detailed information
Bioinformatically predicted
Overview
| Name | pilD | Type | Machinery gene |
| Locus tag | SBAL678_RS43965 | Genome accession | NC_016901 |
| Coordinates | 4743755..4744669 (+) | Length | 304 a.a. |
| NCBI ID | WP_006084370.1 | Uniprot ID | A9L5C8 |
| Organism | Shewanella baltica OS678 | ||
| 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) |
|---|---|---|---|---|
| ICE | 4732481..4781958 | 4743755..4744669 | within | 0 |
Gene organization within MGE regions
Location: 4732481..4781958
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SBAL678_RS43925 (Sbal678_4087) | aceE | 4732930..4735596 (-) | 2667 | WP_006083344.1 | pyruvate dehydrogenase (acetyl-transferring), homodimeric type | - |
| SBAL678_RS43930 (Sbal678_4088) | pdhR | 4735678..4736430 (-) | 753 | WP_006083345.1 | pyruvate dehydrogenase complex transcriptional repressor PdhR | - |
| SBAL678_RS43935 (Sbal678_4089) | ampE | 4736670..4737521 (-) | 852 | WP_006083346.1 | beta-lactamase regulator AmpE | - |
| SBAL678_RS43940 (Sbal678_4090) | ampD | 4737591..4738154 (-) | 564 | WP_012197706.1 | 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD | - |
| SBAL678_RS43945 (Sbal678_4091) | nadC | 4738425..4739306 (+) | 882 | WP_006083348.1 | carboxylating nicotinate-nucleotide diphosphorylase | - |
| SBAL678_RS43950 (Sbal678_4092) | - | 4740023..4740478 (+) | 456 | WP_006084367.1 | prepilin-type N-terminal cleavage/methylation domain-containing protein | - |
| SBAL678_RS43955 (Sbal678_4093) | pilB | 4740584..4742296 (+) | 1713 | WP_006084368.1 | type IV-A pilus assembly ATPase PilB | Machinery gene |
| SBAL678_RS43960 (Sbal678_4094) | pilC | 4742445..4743716 (+) | 1272 | WP_006084369.1 | type II secretion system F family protein | Machinery gene |
| SBAL678_RS43965 (Sbal678_4095) | pilD | 4743755..4744669 (+) | 915 | WP_006084370.1 | A24 family peptidase | Machinery gene |
| SBAL678_RS43970 (Sbal678_4096) | coaE | 4744709..4745326 (+) | 618 | WP_006084371.1 | dephospho-CoA kinase | - |
| SBAL678_RS43975 (Sbal678_4097) | zapD | 4745319..4746053 (+) | 735 | WP_006084372.1 | cell division protein ZapD | - |
| SBAL678_RS43980 (Sbal678_4098) | yacG | 4746127..4746336 (+) | 210 | WP_006083355.1 | DNA gyrase inhibitor YacG | - |
| SBAL678_RS43985 (Sbal678_4099) | mutT | 4746413..4746805 (+) | 393 | WP_006084373.1 | 8-oxo-dGTP diphosphatase MutT | - |
| SBAL678_RS43990 (Sbal678_4100) | - | 4747362..4747898 (+) | 537 | WP_006084374.1 | thioredoxin family protein | - |
| SBAL678_RS43995 (Sbal678_4101) | - | 4747963..4748889 (-) | 927 | WP_006084375.1 | exopolyphosphatase | - |
| SBAL678_RS44000 (Sbal678_4102) | rhlB | 4748890..4750206 (-) | 1317 | WP_006084377.1 | ATP-dependent RNA helicase RhlB | - |
| SBAL678_RS44005 (Sbal678_4103) | trxA | 4750359..4750685 (+) | 327 | WP_006083360.1 | thioredoxin TrxA | - |
| SBAL678_RS44010 (Sbal678_4104) | rho | 4750895..4752160 (+) | 1266 | WP_006083361.1 | transcription termination factor Rho | - |
| SBAL678_RS44015 (Sbal678_4105) | - | 4752216..4753142 (-) | 927 | WP_006084378.1 | LysR family transcriptional regulator | - |
| SBAL678_RS44020 (Sbal678_4106) | - | 4753277..4754299 (+) | 1023 | WP_006084380.1 | zinc-binding alcohol dehydrogenase family protein | - |
| SBAL678_RS44025 (Sbal678_4107) | - | 4754296..4754580 (+) | 285 | WP_006084381.1 | putative quinol monooxygenase | - |
| SBAL678_RS44030 (Sbal678_4108) | - | 4754629..4755360 (-) | 732 | WP_006084382.1 | fumarate reductase iron-sulfur subunit | - |
| SBAL678_RS44035 (Sbal678_4109) | - | 4755360..4757366 (-) | 2007 | WP_012197707.1 | fumarate reductase flavoprotein subunit | - |
| SBAL678_RS44040 (Sbal678_4110) | - | 4757476..4758147 (-) | 672 | WP_006084385.1 | fumarate reductase cytochrome b subunit | - |
| SBAL678_RS44045 (Sbal678_4111) | - | 4758320..4759042 (-) | 723 | WP_006084386.1 | fumarate reductase cytochrome b subunit | - |
| SBAL678_RS44050 (Sbal678_4112) | prmA | 4759427..4760308 (+) | 882 | WP_012197708.1 | 50S ribosomal protein L11 methyltransferase | - |
| SBAL678_RS44055 (Sbal678_4113) | dusB | 4760483..4761451 (+) | 969 | WP_006083370.1 | tRNA dihydrouridine synthase DusB | - |
| SBAL678_RS44060 (Sbal678_4114) | fis | 4761468..4761773 (+) | 306 | WP_006083371.1 | DNA-binding transcriptional regulator Fis | - |
| SBAL678_RS44065 (Sbal678_4115) | - | 4762116..4765106 (+) | 2991 | WP_012197709.1 | UvrD-helicase domain-containing protein | - |
| SBAL678_RS44070 (Sbal678_4116) | ric | 4765335..4766144 (+) | 810 | WP_012197710.1 | iron-sulfur cluster repair di-iron protein | - |
| SBAL678_RS44075 (Sbal678_4117) | - | 4766277..4766780 (+) | 504 | WP_012197711.1 | helix-turn-helix domain-containing protein | - |
| SBAL678_RS44080 (Sbal678_4118) | - | 4766810..4767388 (-) | 579 | WP_012090405.1 | HupE/UreJ family protein | - |
| SBAL678_RS44085 (Sbal678_4119) | - | 4767512..4768243 (-) | 732 | WP_006083419.1 | HAD-IA family hydrolase | - |
| SBAL678_RS44090 (Sbal678_4120) | xerC | 4768243..4769163 (-) | 921 | WP_012197712.1 | tyrosine recombinase XerC | - |
| SBAL678_RS44095 (Sbal678_4121) | - | 4769221..4769850 (-) | 630 | WP_011848049.1 | DUF484 family protein | - |
| SBAL678_RS44100 (Sbal678_4122) | dapF | 4769847..4770674 (-) | 828 | WP_006083422.1 | diaminopimelate epimerase | - |
| SBAL678_RS44105 (Sbal678_4123) | lysA | 4770750..4771994 (-) | 1245 | WP_006084396.1 | diaminopimelate decarboxylase | - |
| SBAL678_RS44110 (Sbal678_4124) | - | 4772058..4772249 (-) | 192 | WP_006083425.1 | lipoprotein | - |
| SBAL678_RS44115 (Sbal678_4125) | cyaY | 4772329..4772658 (+) | 330 | WP_006083426.1 | iron donor protein CyaY | - |
| SBAL678_RS44120 (Sbal678_4126) | - | 4772743..4775154 (-) | 2412 | WP_012197714.1 | class I adenylate cyclase | - |
| SBAL678_RS44125 (Sbal678_4127) | hemC | 4775357..4776289 (+) | 933 | WP_012197715.1 | hydroxymethylbilane synthase | - |
| SBAL678_RS44130 (Sbal678_4128) | - | 4776294..4777034 (+) | 741 | WP_012197716.1 | uroporphyrinogen-III synthase | - |
| SBAL678_RS44135 (Sbal678_4129) | - | 4777095..4778276 (+) | 1182 | WP_012197717.1 | uroporphyrinogen-III C-methyltransferase | - |
| SBAL678_RS44140 (Sbal678_4130) | - | 4778273..4779439 (+) | 1167 | WP_012197718.1 | heme biosynthesis HemY N-terminal domain-containing protein | - |
Sequence
Protein
Download Length: 304 a.a. Molecular weight: 33973.52 Da Isoelectric Point: 7.7253
>NTDB_id=43950 SBAL678_RS43965 WP_006084370.1 4743755..4744669(+) (pilD) [Shewanella baltica OS678]
MSEFISILGQHPYLFMALSFIFAATIGSFLNVVIHRFPVMMKREWQQECNQYLQEYHEDIVKKIGIDQLNKPIDAFPEKY
NLVVPGSACPKCKTSIKPWHNLPVLGWLMLKGKCAACHAPISARYPIIEFITGLLIATLAWHFGPSWQFVFASILTFVLV
ALTGIDLDEMLLPDQMTLPLLWLGLIINLNHIFASPTDAIIGAAAGYLSLWSIFWLFKILTGKEGMGYGDFKLLAVFGAW
LGWQMLPLVILLSSLVAAVVGITMIVSKRLKQGNPIPFGPYIAAAGWIALLFGQQIVDWYLSTL
MSEFISILGQHPYLFMALSFIFAATIGSFLNVVIHRFPVMMKREWQQECNQYLQEYHEDIVKKIGIDQLNKPIDAFPEKY
NLVVPGSACPKCKTSIKPWHNLPVLGWLMLKGKCAACHAPISARYPIIEFITGLLIATLAWHFGPSWQFVFASILTFVLV
ALTGIDLDEMLLPDQMTLPLLWLGLIINLNHIFASPTDAIIGAAAGYLSLWSIFWLFKILTGKEGMGYGDFKLLAVFGAW
LGWQMLPLVILLSSLVAAVVGITMIVSKRLKQGNPIPFGPYIAAAGWIALLFGQQIVDWYLSTL
Nucleotide
Download Length: 915 bp
>NTDB_id=43950 SBAL678_RS43965 WP_006084370.1 4743755..4744669(+) (pilD) [Shewanella baltica OS678]
ATGTCAGAATTCATCTCCATTTTGGGCCAGCACCCTTATCTTTTTATGGCTCTAAGCTTTATTTTTGCCGCTACCATTGG
TAGTTTTTTAAATGTGGTGATCCACAGATTTCCTGTGATGATGAAACGGGAGTGGCAGCAAGAATGTAATCAGTATTTAC
AGGAATACCACGAAGACATAGTCAAAAAAATAGGGATAGACCAACTCAATAAACCTATAGATGCCTTCCCTGAAAAGTAT
AATCTTGTTGTGCCGGGCTCAGCCTGCCCTAAGTGCAAAACGTCGATTAAACCTTGGCATAATTTACCCGTATTAGGCTG
GTTAATGCTCAAGGGAAAATGCGCCGCCTGTCACGCCCCTATTTCTGCTCGCTACCCCATTATTGAATTCATCACAGGGC
TACTTATCGCGACTTTAGCTTGGCATTTTGGTCCAAGCTGGCAGTTTGTTTTTGCGAGCATACTCACCTTTGTGCTTGTA
GCACTGACAGGTATCGATCTTGATGAGATGTTGCTCCCCGACCAAATGACGCTACCGTTGCTTTGGCTCGGCTTGATAAT
CAATTTAAATCATATCTTTGCGAGCCCAACCGATGCCATTATCGGTGCGGCGGCAGGCTATTTGAGTCTATGGTCCATTT
TCTGGTTGTTTAAAATCCTCACCGGCAAGGAAGGCATGGGCTATGGCGACTTTAAATTACTCGCCGTGTTCGGTGCTTGG
CTTGGCTGGCAAATGCTGCCACTGGTGATTTTACTTTCGTCCCTCGTTGCCGCAGTCGTTGGCATCACTATGATTGTTAG
TAAACGCCTGAAACAAGGGAATCCAATTCCATTTGGCCCCTATATTGCTGCCGCAGGCTGGATAGCCTTGCTATTTGGAC
AGCAGATTGTCGATTGGTACCTATCAACACTGTAA
ATGTCAGAATTCATCTCCATTTTGGGCCAGCACCCTTATCTTTTTATGGCTCTAAGCTTTATTTTTGCCGCTACCATTGG
TAGTTTTTTAAATGTGGTGATCCACAGATTTCCTGTGATGATGAAACGGGAGTGGCAGCAAGAATGTAATCAGTATTTAC
AGGAATACCACGAAGACATAGTCAAAAAAATAGGGATAGACCAACTCAATAAACCTATAGATGCCTTCCCTGAAAAGTAT
AATCTTGTTGTGCCGGGCTCAGCCTGCCCTAAGTGCAAAACGTCGATTAAACCTTGGCATAATTTACCCGTATTAGGCTG
GTTAATGCTCAAGGGAAAATGCGCCGCCTGTCACGCCCCTATTTCTGCTCGCTACCCCATTATTGAATTCATCACAGGGC
TACTTATCGCGACTTTAGCTTGGCATTTTGGTCCAAGCTGGCAGTTTGTTTTTGCGAGCATACTCACCTTTGTGCTTGTA
GCACTGACAGGTATCGATCTTGATGAGATGTTGCTCCCCGACCAAATGACGCTACCGTTGCTTTGGCTCGGCTTGATAAT
CAATTTAAATCATATCTTTGCGAGCCCAACCGATGCCATTATCGGTGCGGCGGCAGGCTATTTGAGTCTATGGTCCATTT
TCTGGTTGTTTAAAATCCTCACCGGCAAGGAAGGCATGGGCTATGGCGACTTTAAATTACTCGCCGTGTTCGGTGCTTGG
CTTGGCTGGCAAATGCTGCCACTGGTGATTTTACTTTCGTCCCTCGTTGCCGCAGTCGTTGGCATCACTATGATTGTTAG
TAAACGCCTGAAACAAGGGAATCCAATTCCATTTGGCCCCTATATTGCTGCCGCAGGCTGGATAGCCTTGCTATTTGGAC
AGCAGATTGTCGATTGGTACCTATCAACACTGTAA
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| pilD | Vibrio cholerae strain A1552 |
50.676 |
97.368 |
0.493 |
| pilD | Vibrio campbellii strain DS40M4 |
48.505 |
99.013 |
0.48 |
| pilD | Acinetobacter baumannii D1279779 |
48.789 |
95.066 |
0.464 |
| pilD | Acinetobacter nosocomialis M2 |
48.789 |
95.066 |
0.464 |
| pilD | Neisseria gonorrhoeae MS11 |
43.945 |
95.066 |
0.418 |