Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   XAC29_RS39290 Genome accession   NC_020800
Coordinates   3823811..3825547 (-) Length   578 a.a.
NCBI ID   WP_015463525.1    Uniprot ID   -
Organism   Xanthomonas axonopodis Xac29-1     
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 3799605..3823463 3823811..3825547 flank 348


Gene organization within MGE regions


Location: 3799605..3825547
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  XAC29_RS39185 (XAC29_16405) - 3799605..3799934 (-) 330 WP_005918642.1 hypothetical protein -
  XAC29_RS39190 (XAC29_16410) - 3800081..3800680 (+) 600 WP_015462601.1 hypothetical protein -
  XAC29_RS39195 (XAC29_16415) - 3801007..3801456 (+) 450 WP_015462602.1 hypothetical protein -
  XAC29_RS39200 (XAC29_16420) - 3801453..3802058 (+) 606 WP_011052963.1 M48 family metalloprotease -
  XAC29_RS39205 (XAC29_16425) - 3802055..3802549 (+) 495 Protein_3244 hypothetical protein -
  XAC29_RS47005 - 3802677..3803021 (-) 345 WP_075150220.1 hypothetical protein -
  XAC29_RS39210 (XAC29_16430) - 3803064..3804341 (-) 1278 WP_011052966.1 lytic murein transglycosylase -
  XAC29_RS39215 (XAC29_16435) - 3804474..3807464 (-) 2991 WP_011052967.1 Tn3-like element TnXax1 family transposase -
  XAC29_RS39220 (XAC29_16440) - 3807472..3808746 (-) 1275 WP_011052968.1 tyrosine-type recombinase/integrase -
  XAC29_RS39225 (XAC29_16445) - 3808938..3809993 (+) 1056 WP_015462603.1 DNA-binding protein -
  XAC29_RS39230 xopE 3810126..3811202 (+) 1077 WP_041470856.1 XopE/AvrPphe family type III secretion system effector -
  XAC29_RS39235 (XAC29_16455) - 3811533..3812614 (+) 1082 Protein_3251 DNA-binding protein -
  XAC29_RS39240 (XAC29_16460) xopAI 3812748..3813638 (+) 891 WP_011052119.1 type III secretion system effector XopAI -
  XAC29_RS39245 (XAC29_16465) - 3814058..3814864 (-) 807 WP_015463520.1 hypothetical protein -
  XAC29_RS39250 (XAC29_16470) - 3814969..3815253 (+) 285 WP_016849322.1 hypothetical protein -
  XAC29_RS39255 (XAC29_16475) - 3815481..3816596 (+) 1116 WP_011052122.1 IS1595 family transposase -
  XAC29_RS48735 - 3816551..3817066 (-) 516 WP_011052123.1 hypothetical protein -
  XAC29_RS39260 (XAC29_16480) sucD 3817153..3818028 (-) 876 WP_005921370.1 succinate--CoA ligase subunit alpha -
  XAC29_RS39265 (XAC29_16485) sucC 3818053..3819222 (-) 1170 WP_005915812.1 ADP-forming succinate--CoA ligase subunit beta -
  XAC29_RS39270 (XAC29_16490) - 3819454..3821067 (+) 1614 WP_003488599.1 HAMP domain-containing sensor histidine kinase -
  XAC29_RS39275 (XAC29_16495) pilR 3821392..3822786 (+) 1395 WP_015463522.1 sigma-54 dependent transcriptional regulator Regulator
  XAC29_RS39280 (XAC29_16500) - 3823045..3823212 (-) 168 WP_015463523.1 hypothetical protein -
  XAC29_RS39285 (XAC29_16505) pilB 3823344..3823463 (-) 120 WP_005915819.1 hypothetical protein Machinery gene
  XAC29_RS39290 (XAC29_16515) pilB 3823811..3825547 (-) 1737 WP_015463525.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62596.69 Da        Isoelectric Point: 5.6213

>NTDB_id=57355 XAC29_RS39290 WP_015463525.1 3823811..3825547(-) (pilB) [Xanthomonas axonopodis Xac29-1]
MNSVVTANLVGITGIARRLVQDGAVEEAVARSAMDQASAAKVPLPQWFAEKKLVTASQLAAANAVEFGMPLLDVSAFDAS
QNAVKLVSEELLQKHQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSALG
DDEEGMGDLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEPDQQK
LFLEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
DNALLAEGFTPAQLAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGTAMQIAEAATGDRYPRLRQSALM
KAANGVTSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=57355 XAC29_RS39290 WP_015463525.1 3823811..3825547(-) (pilB) [Xanthomonas axonopodis Xac29-1]
ATGAATAGCGTCGTGACCGCAAATTTGGTTGGAATAACGGGCATCGCGCGTCGTCTGGTGCAAGACGGTGCGGTCGAAGA
AGCAGTTGCGCGATCTGCGATGGATCAGGCATCTGCGGCAAAGGTTCCTCTGCCGCAATGGTTTGCTGAGAAGAAGTTGG
TCACTGCTTCCCAGCTCGCCGCTGCGAATGCGGTCGAGTTCGGCATGCCACTGTTGGACGTGTCGGCGTTCGACGCCAGC
CAAAACGCGGTCAAGCTGGTAAGTGAGGAGCTACTTCAGAAGCACCAAGTGCTACCGCTGTTCAAGCGCGGCAACCGGCT
GTTCGTAGGGGTGAGCAATCCGACCCAGACCCGGGCGCTGGATGACATCAAGTTTCATACGAACTTGGTAGTCGAGCCCA
TCCTTGTGGATGAAGATCAGATCCGTCGCACCCTGGAGCAATGGCAGGCCAGCAATGCTGCGCTGGGCTCCGCGCTCGGT
GACGACGAGGAGGGCATGGGGGATCTGGACGTCTCGGCCGGCGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTTGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCAGGCGGGGAGCCTCGGACA
TCCATTTCGAGCCGTATGAAGACGACTACCGGGTGCGCTTGCGCATCGATGGCTTGTTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTGAACCAGCGCATCGCAGCGCGGTTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTCAGCACCTTGCCGACCCTGTTCGGCGAGA
AGGTGGTGCTGCGTATCCTGGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGCTACGAGCCGGACCAACAGAAG
CTGTTCCTGGAAGCGATCCACAAGCCCTATGGCATGGTGCTGGTGACCGGGCCGACCGGCTCGGGCAAGACGGTGTCGTT
GTACACCGCGCTGGGAATTCTCAACGACGAGACGCGCAATATCTCCACCGCGGAGGATCCGGTCGAAATCCGCTTGCCTG
GCGTCAATCAGGTGCAGCAGAACAACAAGCGTGGCATGACCTTCGCCGCGGCTTTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGTGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACGGGTCACATGGT
GCTGTCGACGTTGCACACCAACGATGCGCCGCAGACCATCGCACGTCTGATGAACATGGGCATCGCGCCCTACAACATCA
CCTCGTCGGTGACGCTGGTGATCGCGCAGCGGCTGGCGCGGCGCTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCT
GACAACGCATTGCTGGCCGAAGGATTCACGCCTGCCCAGCTTGCCGCCGGGATCGAGCTGTATGAGGCGGTCGGTTGCGA
TGAGTGCACCGAAGGCTACAAGGGGCGTACCGGTATCTACCAGGTAATGCCGATGACCGACGAGATCGGCGCGATCGTGC
TGGAAGGCGGCACGGCGATGCAGATCGCCGAGGCCGCGACAGGCGATCGGTATCCGCGATTGCGGCAGTCGGCGCTGATG
AAGGCTGCGAATGGGGTGACCAGCCTGGCCGAGATCAATCGTGTGACGAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(49-153)


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

56.162

98.27

0.552
  pilB Acinetobacter baylyi ADP1

55.458

98.27

0.545
  pilB Legionella pneumophila strain ERS1305867

51.494

98.443

0.507
  pilB Vibrio cholerae strain A1552

48.958

99.654

0.488
  pilF Neisseria gonorrhoeae MS11

48.944

98.27

0.481
  pilB Vibrio parahaemolyticus RIMD 2210633

46.607

96.886

0.452
  pilB Vibrio campbellii strain DS40M4

45.167

98.443

0.445

Multiple sequence alignment