Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NG828_RS05830 Genome accession   NZ_CP099530
Coordinates   1362921..1364654 (+) Length   577 a.a.
NCBI ID   WP_026144655.1    Uniprot ID   -
Organism   Xanthomonas sacchari strain YT9-19-2     
Function   power the 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 1343390..1362790 1362921..1364654 flank 131


Gene organization within MGE regions


Location: 1343390..1364654
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NG828_RS05740 (NG828_05725) - 1343390..1344010 (-) 621 WP_148828482.1 histidine phosphatase family protein -
  NG828_RS05745 (NG828_05730) - 1344226..1346250 (+) 2025 WP_230979387.1 phospholipase C, phosphocholine-specific -
  NG828_RS05750 (NG828_05735) - 1346660..1348969 (-) 2310 WP_267082996.1 TonB-dependent receptor -
  NG828_RS05755 (NG828_05740) rimK 1349245..1350138 (+) 894 WP_026143298.1 30S ribosomal protein S6--L-glutamate ligase -
  NG828_RS05760 (NG828_05745) - 1350402..1350848 (+) 447 WP_223875524.1 hypothetical protein -
  NG828_RS05765 (NG828_05750) - 1350863..1351540 (+) 678 WP_010340533.1 response regulator transcription factor -
  NG828_RS05770 (NG828_05755) - 1351533..1352867 (+) 1335 WP_148828478.1 HAMP domain-containing sensor histidine kinase -
  NG828_RS05775 (NG828_05760) coaE 1352978..1353607 (-) 630 WP_150409182.1 dephospho-CoA kinase -
  NG828_RS05780 (NG828_05765) - 1353621..1354484 (-) 864 WP_017910397.1 A24 family peptidase -
  NG828_RS05785 (NG828_05770) pilC 1354491..1355750 (-) 1260 WP_153751114.1 type II secretion system F family protein Machinery gene
  NG828_RS05790 (NG828_05775) pilA/pilAI 1356115..1356507 (+) 393 WP_017910395.1 pilin Machinery gene
  NG828_RS05800 (NG828_05785) - 1356614..1357039 (+) 426 WP_148828475.1 pilin -
  NG828_RS05805 (NG828_05790) - 1357068..1358906 (+) 1839 WP_153751090.1 hypothetical protein -
  NG828_RS05810 (NG828_05795) - 1358991..1360124 (-) 1134 WP_267082997.1 glycosyltransferase -
  NG828_RS05815 (NG828_05800) - 1360175..1361125 (-) 951 WP_267082998.1 YbhN family protein -
  NG828_RS05820 (NG828_05805) - 1361122..1361910 (-) 789 WP_153751087.1 class I SAM-dependent methyltransferase -
  NG828_RS05825 (NG828_05810) - 1361933..1362790 (-) 858 WP_267082999.1 glycosyltransferase family 2 protein -
  NG828_RS05830 (NG828_05815) pilB 1362921..1364654 (+) 1734 WP_026144655.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62625.92 Da        Isoelectric Point: 5.6466

>NTDB_id=700416 NG828_RS05830 WP_026144655.1 1362921..1364654(+) (pilB) [Xanthomonas sacchari strain YT9-19-2]
MNVAVSANLVGITGIARRLVQDGALEEAAARTAMAQAAEAKVPLPQWFSEKKLVTAAQLAAANAVEFGMPLMDVSVFDAS
QNAMKLVSEELLQKYQVLPLFKRGGRLFVGISNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDSLGSALG
DDEGMDNLDVGGGDEDMGGGGDTGIDAKGEDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVAKAPV
KLNQRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKNKQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPEQQKL
FLEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDDTRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPD
IIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRPVQLPE
KALLAEGFTEAEIAAGVQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIASAAQKIGVKDLRQSALLK
ARNGITSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=700416 NG828_RS05830 WP_026144655.1 1362921..1364654(+) (pilB) [Xanthomonas sacchari strain YT9-19-2]
ATGAACGTAGCTGTATCGGCCAACCTCGTCGGCATCACCGGGATCGCCCGCCGCCTCGTGCAGGACGGTGCGCTGGAGGA
AGCCGCGGCGCGGACCGCGATGGCCCAGGCGGCCGAGGCCAAGGTGCCGCTGCCGCAGTGGTTCTCCGAGAAGAAGCTGG
TCACCGCCGCGCAGCTGGCCGCCGCCAATGCGGTGGAGTTCGGCATGCCGTTGATGGATGTCTCGGTTTTCGACGCCAGC
CAGAACGCGATGAAGCTGGTCAGCGAGGAGTTGCTGCAGAAGTATCAGGTGCTGCCGCTGTTCAAGCGCGGCGGCCGCCT
GTTCGTCGGCATCAGCAACCCGACCCAGACCCGGGCGCTCGACGACATCAAGTTCCACACCAATCTGACGGTGGAGCCGA
TCCTGGTCGACGAGGACCAGATCCGCCGCACCCTGGAGCAGTGGCAGGCCAGCAACGACTCGCTCGGCAGTGCCTTGGGC
GACGACGAGGGCATGGACAACCTCGATGTCGGCGGCGGCGACGAGGACATGGGCGGCGGTGGCGACACCGGCATCGACGC
CAAGGGGGAGGACACCCCGGTCGTCAAGTTCGTGAACAAGGTGCTGGTCGATGCGATCCGCCGCGGCGCGTCCGACATCC
ACTTCGAGCCCTACGAGGACGACTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAAGGCGCCGGTC
AAGCTCAATCAGCGCATCGCCGCGCGCCTGAAGGTGATGGCGCAGCTGGACATCGCCGAGAAGCGGGTCCCGCAGGACGG
CCGCATCAAGCTCAATCTGTCCAAGAACAAGCAGATCGATTTCCGCGTCAGCACCCTGCCCACGCTGTTCGGCGAGAAGA
TCGTGTTGCGTATCCTCGATGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGCTACGAGCCGGAGCAGCAGAAGCTG
TTCCTGGAGGCGATCCACAAGCCGTACGGCATGGTCCTGGTCACCGGCCCCACCGGCTCCGGCAAGACGGTGTCGCTGTA
CACCGCGCTGGGCATCCTCAACGACGACACCCGCAACATCTCCACCGCCGAGGATCCGGTCGAAATCCGCCTGCCCGGGG
TCAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCGGCGGCGCTGCGCTCGTTCCTGCGCCAGGATCCGGAC
ATCATCATGGTCGGCGAAATCCGCGACCTGGAGACCGCCGAGATCGCGATCAAGGCCGCGCAGACCGGCCACATGGTGCT
GTCCACCCTGCACACCAACGACGCGCCGCAGACCATTGCGCGCCTGATGAACATGGGCATCGCGCCCTACAACATCACCA
GTTCGGTGACCCTGGTCATCGCCCAGCGCCTGGCGCGGCGCCTGTGCAACAACTGCAAGCGCCCGGTCCAGTTGCCGGAA
AAGGCCTTGCTGGCCGAAGGCTTCACCGAGGCGGAGATCGCCGCCGGCGTCCAACTGTACGAGGCGGTCGGCTGCGACGA
GTGCACCGAGGGCTACAAAGGCCGCACCGGCATCTACCAGGTGATGCCGATGAACGACGAGATCGCGGCGATCGTGCTGC
AGGGCGGCAACGCCATGGACATCGCCAGCGCCGCGCAGAAGATCGGGGTCAAGGACCTGCGCCAGTCGGCCCTGCTCAAG
GCCCGCAACGGCATCACCAGCCTGGCCGAGATCAATCGGGTGACGAAGGATTGA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(50-153)

Type II/IV secretion system protein (T2SSE)

(200-467)


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
  pilB Acinetobacter baumannii D1279779

55.088

98.787

0.544
  pilB Acinetobacter baylyi ADP1

54.895

99.133

0.544
  pilB Legionella pneumophila strain ERS1305867

51.142

98.614

0.504
  pilB Vibrio cholerae strain A1552

49.913

99.307

0.496
  pilF Neisseria gonorrhoeae MS11

49.472

98.44

0.487
  pilB Vibrio parahaemolyticus RIMD 2210633

46.221

98.614

0.456
  pilB Vibrio campbellii strain DS40M4

45.518

98.614

0.449
  pilB/pilB1 Synechocystis sp. PCC 6803

36.721

100

0.388
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.205

100

0.383
  pilF Thermus thermophilus HB27

39.81

90.988

0.362