Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilU   Type   Machinery gene
Locus tag   LT988_RS12935 Genome accession   NZ_CP089309
Coordinates   2855183..2856238 (-) Length   351 a.a.
NCBI ID   WP_232405989.1    Uniprot ID   -
Organism   Thiocapsa bogorovii strain BBS     
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 2837487..2867935 2855183..2856238 within 0


Gene organization within MGE regions


Location: 2837487..2867935
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LT988_RS12855 (LT988_12855) - 2837610..2838788 (+) 1179 WP_232405974.1 murein hydrolase activator EnvC -
  LT988_RS12860 (LT988_12860) - 2839018..2840373 (+) 1356 WP_408648077.1 S41 family peptidase -
  LT988_RS12865 (LT988_12865) - 2840430..2840984 (+) 555 WP_232405976.1 DJ-1 family glyoxalase III -
  LT988_RS12870 (LT988_12870) - 2841039..2842085 (+) 1047 WP_232405977.1 glycosyltransferase family 4 protein -
  LT988_RS12875 (LT988_12875) - 2842082..2843977 (+) 1896 WP_232405978.1 nucleoside-diphosphate sugar epimerase/dehydratase -
  LT988_RS12880 (LT988_12880) gspE 2843970..2845853 (+) 1884 WP_232405979.1 type II secretion system ATPase GspE -
  LT988_RS12885 (LT988_12885) - 2846023..2847231 (+) 1209 WP_232405980.1 type II secretion system F family protein -
  LT988_RS12890 (LT988_12890) gspG 2847333..2847773 (+) 441 WP_232405981.1 type II secretion system major pseudopilin GspG -
  LT988_RS12895 (LT988_12895) - 2847811..2848278 (+) 468 WP_232405982.1 GspH/FimT family pseudopilin -
  LT988_RS12900 (LT988_12900) - 2848275..2848682 (+) 408 WP_232405983.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  LT988_RS12905 (LT988_12905) - 2848911..2849585 (+) 675 WP_232405984.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  LT988_RS12910 (LT988_12910) - 2849591..2850517 (+) 927 WP_232410578.1 general secretion pathway protein GspK -
  LT988_RS12915 (LT988_12915) - 2850624..2851721 (+) 1098 WP_232405985.1 PilN domain-containing protein -
  LT988_RS12920 (LT988_12920) gspM 2851718..2852335 (+) 618 WP_232405986.1 type II secretion system protein GspM -
  LT988_RS12925 (LT988_12925) - 2852332..2852907 (+) 576 WP_232405987.1 hypothetical protein -
  LT988_RS12930 (LT988_12930) gspD 2852904..2855150 (+) 2247 WP_232405988.1 type II secretion system secretin GspD -
  LT988_RS12935 (LT988_12935) pilU 2855183..2856238 (-) 1056 WP_232405989.1 PilT/PilU family type 4a pilus ATPase Machinery gene
  LT988_RS12940 (LT988_12940) - 2856380..2856709 (-) 330 Protein_2588 type IV pili twitching motility protein PilT -
  LT988_RS12945 (LT988_12945) - 2856768..2858309 (+) 1542 WP_232405990.1 transposase -
  LT988_RS12950 (LT988_12950) - 2858388..2859311 (-) 924 Protein_2590 PilT/PilU family type 4a pilus ATPase -
  LT988_RS12955 (LT988_12955) - 2859521..2860987 (-) 1467 WP_232405991.1 glutamate synthase subunit beta -
  LT988_RS12960 (LT988_12960) gltB 2860980..2865635 (-) 4656 WP_232405992.1 glutamate synthase large subunit -
  LT988_RS12965 (LT988_12965) aroB 2866144..2867226 (-) 1083 WP_232405993.1 3-dehydroquinate synthase -
  LT988_RS12970 (LT988_12970) aroK 2867411..2867935 (-) 525 WP_232405994.1 shikimate kinase AroK -

Sequence

Protein


Download         Length: 351 a.a.        Molecular weight: 38940.73 Da        Isoelectric Point: 6.4510

>NTDB_id=636349 LT988_RS12935 WP_232405989.1 2855183..2856238(-) (pilU) [Thiocapsa bogorovii strain BBS]
MDINPYLEMMIRHKASDLFFVPGAPAKIKIEGVIRSIGENPLTPAFCREAIASLIDADQERELTESLELDFAIAFEDRGR
FRVNAYHQRGHRAMVLRYIRSSIPTLEELDLPAVLSRLVMHKRGIILMVGATGSGKSTTLAAMIGHRNRTAPGHIITIED
PIEFVHPHQQCIVSQRELGLDTKDYSRALKSALREAPDVILIGEIRTRNTMEAAIELAGTGHLAISTLHANNAYQAMERI
VNMFPQEMHKTLFADLSSYMRAIVSQRLVRTTTGARRAAIEILVNTPHIADLIRDGHIEAIEEAMQGHGEEGTVTFDEAL
LKLYHKGAISLEEALANADSAPNLEARINFG

Nucleotide


Download         Length: 1056 bp        

>NTDB_id=636349 LT988_RS12935 WP_232405989.1 2855183..2856238(-) (pilU) [Thiocapsa bogorovii strain BBS]
ATGGACATCAACCCTTATCTCGAGATGATGATTCGACACAAGGCGTCGGATCTCTTTTTCGTTCCCGGAGCACCGGCCAA
GATCAAGATCGAAGGGGTGATCCGGTCGATCGGCGAGAACCCTTTGACGCCGGCCTTCTGTCGGGAGGCGATTGCGTCAC
TCATCGATGCGGATCAAGAGCGTGAGCTCACGGAGTCGCTCGAGCTCGACTTCGCCATCGCCTTCGAGGATCGGGGTCGC
TTCAGGGTCAACGCCTATCATCAGCGCGGACACCGGGCGATGGTCCTGCGTTACATCCGCAGCAGCATCCCGACCCTAGA
GGAGTTGGACCTACCCGCCGTGCTCAGCCGCCTGGTCATGCACAAGCGAGGGATCATCCTCATGGTCGGCGCGACAGGCT
CCGGCAAGTCGACGACACTCGCCGCGATGATCGGCCACCGCAATCGAACGGCGCCGGGTCACATCATCACCATCGAAGAT
CCGATCGAATTCGTGCATCCTCACCAGCAATGCATCGTCAGCCAACGCGAGCTCGGTCTGGATACCAAAGATTACTCCCG
GGCGTTGAAGAGTGCCCTGCGCGAGGCGCCGGATGTCATCTTGATCGGCGAGATCCGGACCCGCAACACGATGGAAGCAG
CGATCGAGCTGGCCGGAACGGGTCATTTGGCGATCTCCACCCTGCATGCCAACAACGCGTATCAAGCGATGGAGCGGATC
GTCAATATGTTCCCGCAGGAGATGCACAAGACGCTCTTTGCCGATCTCTCCTCCTACATGCGCGCGATCGTGTCCCAACG
CTTGGTCCGAACCACAACCGGGGCGCGCCGTGCGGCCATCGAGATCTTGGTCAATACGCCCCACATCGCGGATCTCATTC
GCGACGGGCACATCGAAGCGATCGAGGAAGCCATGCAGGGGCACGGCGAGGAGGGAACGGTCACCTTCGACGAGGCGCTC
TTGAAGCTTTACCACAAGGGAGCGATTTCGTTGGAAGAGGCGCTTGCCAACGCGGACTCGGCCCCGAACCTCGAGGCCAG
GATCAACTTCGGGTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(11-271)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilU Pseudomonas stutzeri DSM 10701

50.284

100

0.504
  pilU Acinetobacter baylyi ADP1

48.725

100

0.49
  pilU Vibrio cholerae strain A1552

48.986

98.291

0.481
  pilT Pseudomonas aeruginosa PAK

40.988

98.006

0.402
  pilT Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.003

96.581

0.396
  pilT Pseudomonas stutzeri DSM 10701

39.535

98.006

0.387
  pilT Acinetobacter baylyi ADP1

39.412

96.866

0.382
  pilT Neisseria meningitidis 8013

38.551

98.291

0.379
  pilT Neisseria gonorrhoeae MS11

38.551

98.291

0.379
  pilT Vibrio cholerae strain A1552

39.94

94.872

0.379
  pilT Vibrio cholerae O1 biovar El Tor strain E7946

39.94

94.872

0.379
  pilT Legionella pneumophila strain ERS1305867

40.303

94.017

0.379
  pilT Legionella pneumophila strain Lp02

40.303

94.017

0.379
  pilT Acinetobacter baumannii strain A118

38.922

95.157

0.37
  pilT Acinetobacter nosocomialis M2

38.922

95.157

0.37
  pilT Acinetobacter baumannii D1279779

38.922

95.157

0.37