Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   K6981_RS14940 Genome accession   NZ_CP082213
Coordinates   3385017..3386726 (-) Length   569 a.a.
NCBI ID   WP_274397236.1    Uniprot ID   -
Organism   Xanthomonas cucurbitae strain WI_206     
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 3378575..3389000 3385017..3386726 within 0


Gene organization within MGE regions


Location: 3378575..3389000
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K6981_RS14915 (K6981_14860) - 3378575..3378793 (+) 219 WP_274396441.1 hypothetical protein -
  K6981_RS14920 (K6981_14865) sucD 3378911..3379786 (-) 876 WP_104604276.1 succinate--CoA ligase subunit alpha -
  K6981_RS14925 (K6981_14870) sucC 3379811..3380980 (-) 1170 WP_274396442.1 ADP-forming succinate--CoA ligase subunit beta -
  K6981_RS14930 (K6981_14875) - 3381216..3382829 (+) 1614 WP_104604280.1 HAMP domain-containing sensor histidine kinase -
  K6981_RS14935 (K6981_14880) pilR 3382989..3384380 (+) 1392 WP_170066996.1 sigma-54 dependent transcriptional regulator Regulator
  K6981_RS14940 (K6981_14885) pilB 3385017..3386726 (-) 1710 WP_274397236.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K6981_RS14945 (K6981_14890) pilA2 3386969..3387388 (-) 420 WP_274396444.1 pilin Machinery gene
  K6981_RS14950 (K6981_14895) pilC 3387741..3389000 (+) 1260 WP_274396445.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62106.17 Da        Isoelectric Point: 5.5866

>NTDB_id=600218 K6981_RS14940 WP_274397236.1 3385017..3386726(-) (pilB) [Xanthomonas cucurbitae strain WI_206]
MGITGIARRLVQDGVLDEGNARAAMDQAALAKVPLQQWFAEKKLVSAAQLAAANAFEFGMPLMDVSVFDASQNAIKLVSE
ELLQKHQVLPLFKRGNRLFVGMSNPTQTKALDDIKFHTNLVVEPILVDEDQIRRTLEQWQAGNASFGSSLGDDDEEMGDL
DISTGDEDMGAGGDAGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAPVKLSQRIAA
RLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIEKLGYEADQQKLFLDAIHKP
YGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDIIMVGEIR
DLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKTSLPEHALLAEGF
TQEQIDQGITLYEAVGCDDCTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMKAAHGVTSL
AEINRVTKD

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=600218 K6981_RS14940 WP_274397236.1 3385017..3386726(-) (pilB) [Xanthomonas cucurbitae strain WI_206]
GTGGGCATAACAGGAATAGCGCGGCGTTTAGTTCAAGACGGCGTGCTTGACGAAGGCAATGCTCGCGCTGCGATGGATCA
AGCGGCATTGGCGAAAGTTCCTCTCCAGCAGTGGTTTGCGGAAAAGAAACTTGTATCTGCAGCCCAACTAGCTGCTGCTA
ACGCGTTCGAGTTCGGCATGCCATTGATGGATGTGTCAGTTTTCGACGCCAGCCAGAACGCGATCAAGCTGGTCAGCGAG
GAATTGCTCCAGAAGCACCAGGTGCTGCCGCTGTTCAAGCGCGGGAACCGGTTGTTCGTGGGGATGAGCAACCCGACCCA
GACCAAGGCGCTGGACGACATCAAGTTCCACACTAATTTGGTGGTCGAGCCGATTCTGGTTGATGAAGATCAGATCCGTC
GCACCTTGGAGCAGTGGCAGGCCGGTAATGCGTCTTTTGGTTCGTCACTTGGTGACGATGACGAAGAGATGGGCGATCTG
GACATCTCCACCGGCGACGAAGACATGGGGGCCGGCGGGGATGCCGGGGTCGATGCCAAGGGTGATGACACGCCGGTGGT
GAAATTCGTCAACAAGGTGTTGGTGGATGCGATCCGGCGGGGAGCCTCCGATATCCATTTCGAGCCTTATGAAGACGACT
ACCGTGTTCGCTTGCGCATCGATGGGCTGCTGAAGAACGTGGCCAAGGCGCCGGTGAAGCTGAGCCAGCGGATTGCGGCG
CGGTTGAAGGTGATGTCGCAGCTGGATATCGCCGAAAAGCGGGTGCCGCAGGATGGGCGCATCAAGCTTAATCTGTCCAA
GACCAAACAGATCGACTTCCGTGTGAGTACCTTGCCGACGCTGTTCGGCGAGAAGGTGGTGCTACGTATCCTGGATGGCA
GTGCGGCCAAGCTGGGGATCGAGAAGCTAGGTTACGAGGCGGACCAGCAGAAGCTGTTCCTGGATGCGATCCACAAGCCC
TACGGGATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCCTTGTATACGGCGCTGGGTATCCTCAACGA
TGAGACGCGCAACATCTCTACTGCCGAAGATCCGGTCGAAATTCGCCTGCCTGGCGTCAATCAGGTGCAGCAGAACAACA
AGCGCGGCATGACCTTTGCGGCGGCCTTGCGCTCGTTCCTGCGCCAGGACCCTGACATCATCATGGTCGGCGAAATTCGC
GACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGCCATATGGTGCTGTCCACGTTGCATACCAACGATGC
GCCACAGACCATCGCGCGCTTGATGAACATGGGCATTGCGCCGTACAACATCACCTCGTCGGTGACCTTGGTCATTGCGC
AGCGCCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCAAGACCAGCTTGCCAGAGCATGCGTTGCTGGCCGAAGGGTTT
ACGCAAGAGCAGATCGACCAGGGCATTACGCTGTATGAGGCGGTCGGTTGCGATGACTGCACCGAGGGCTACAAGGGCCG
TACGGGTATCTACCAGGTCATGCCGATGACCGACGAGATCGGTGCGATCGTGCTGGAAGGTGGCAATGCGATGCAGATCG
CCGAGGCTGCGCAGAAGATCGGTATCCGCGACTTGCGGCAGTCGGCCCTGATGAAGGCCGCGCATGGGGTGACCAGCCTG
GCGGAGATCAATCGGGTGACCAAGGACTAA

Domains

Predicted by InterproScan.

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

(40-141)

Type II/IV secretion system protein (T2SSE)

(192-459)


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

55.634

99.824

0.555
  pilB Acinetobacter baylyi ADP1

55.634

99.824

0.555
  pilB Legionella pneumophila strain ERS1305867

52.197

100

0.522
  pilF Neisseria gonorrhoeae MS11

48.592

99.824

0.485
  pilB Vibrio cholerae strain A1552

48.07

100

0.482
  pilB Vibrio campbellii strain DS40M4

45.423

99.824

0.453
  pilB Vibrio parahaemolyticus RIMD 2210633

45.035

99.121

0.446
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.147

94.728

0.371
  pilF Thermus thermophilus HB27

39.808

91.388

0.364