Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABFU12_RS05120 Genome accession   NZ_CP155953
Coordinates   1226476..1228209 (+) Length   577 a.a.
NCBI ID   WP_323523619.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain bglFP 6811     
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 1208400..1226372 1226476..1228209 flank 104


Gene organization within MGE regions


Location: 1208400..1228209
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU12_RS05035 (ABFU12_05030) - 1209359..1209514 (+) 156 WP_274318276.1 hypothetical protein -
  ABFU12_RS05040 (ABFU12_05035) - 1209690..1210085 (+) 396 WP_011038225.1 hypothetical protein -
  ABFU12_RS05045 (ABFU12_05040) - 1210176..1210568 (+) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  ABFU12_RS05050 (ABFU12_05045) glgX 1211110..1213239 (-) 2130 WP_016945001.1 glycogen debranching protein GlgX -
  ABFU12_RS05055 (ABFU12_05050) rimK 1213732..1214607 (+) 876 WP_076054142.1 30S ribosomal protein S6--L-glutamate ligase -
  ABFU12_RS05060 (ABFU12_05055) - 1215257..1215934 (+) 678 WP_003490678.1 response regulator transcription factor -
  ABFU12_RS05065 (ABFU12_05060) - 1215927..1217261 (+) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  ABFU12_RS05070 (ABFU12_05065) - 1217360..1217615 (-) 256 Protein_984 SymE family type I addiction module toxin -
  ABFU12_RS05075 (ABFU12_05070) coaE 1217809..1218432 (-) 624 WP_225042504.1 dephospho-CoA kinase -
  ABFU12_RS05080 (ABFU12_05075) - 1218446..1219309 (-) 864 WP_323523614.1 A24 family peptidase -
  ABFU12_RS05085 (ABFU12_05080) pilC 1219316..1220518 (-) 1203 WP_162275519.1 type II secretion system F family protein Machinery gene
  ABFU12_RS05090 (ABFU12_05085) - 1220701..1222692 (-) 1992 WP_407471045.1 hypothetical protein -
  ABFU12_RS05095 (ABFU12_05090) - 1222763..1223179 (-) 417 WP_323530011.1 pilin -
  ABFU12_RS05100 (ABFU12_05095) - 1223519..1223899 (+) 381 WP_323543050.1 SMR family transporter -
  ABFU12_RS05105 (ABFU12_05100) - 1223904..1224698 (+) 795 WP_076057322.1 glycosyltransferase family A protein -
  ABFU12_RS05110 (ABFU12_05105) - 1224695..1225741 (+) 1047 WP_081390738.1 glycosyltransferase family 2 protein -
  ABFU12_RS05115 (ABFU12_05110) - 1225734..1226372 (+) 639 WP_407471046.1 methionine biosynthesis protein MetW -
  ABFU12_RS05120 (ABFU12_05115) pilB 1226476..1228209 (+) 1734 WP_323523619.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62798.96 Da        Isoelectric Point: 5.6058

>NTDB_id=1000181 ABFU12_RS05120 WP_323523619.1 1226476..1228209(+) (pilB) [Xanthomonas campestris pv. raphani strain bglFP 6811]
MNSVVTANLVGITGIARRLVQDGALDEGAARAAMDQAATAKVPLPQWFSEKKLVTASQLAAANSVEFGMPLLDVSSFDPN
QNAIKLVSEELLQKFQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNASLGASMG
DGDDEMGDLDVSTGDEEMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTPEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=1000181 ABFU12_RS05120 WP_323523619.1 1226476..1228209(+) (pilB) [Xanthomonas campestris pv. raphani strain bglFP 6811]
ATGAATAGCGTCGTCACCGCCAACTTGGTTGGCATCACGGGCATTGCCCGGCGGCTTGTGCAGGACGGTGCTCTGGATGA
AGGCGCGGCGCGTGCTGCGATGGATCAGGCCGCTACTGCCAAGGTCCCGTTGCCGCAATGGTTCTCAGAGAAGAAGCTGG
TGACCGCTTCGCAATTAGCAGCTGCCAACTCAGTGGAGTTCGGGATGCCGCTACTTGATGTGTCATCGTTCGACCCTAAT
CAGAATGCAATCAAGTTGGTTAGCGAAGAACTGCTGCAAAAGTTTCAAGTGCTTCCCCTGTTCAAGCGCGGTAATCGGTT
GTTTGTGGGGGTGAGCAACCCGACCCAGACCCGGGCGCTGGACGACATCAAGTTCCATACCAACCTGGTGGTCGAGCCGA
TCCTGGTCGACGAGGACCAGATCCGTCGCACCTTGGAGCAGTGGCAAGCCAGCAATGCGTCGCTTGGCGCGTCGATGGGC
GACGGCGATGATGAGATGGGGGATCTGGACGTCTCCACCGGGGACGAGGAGATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACA
TCCATTTCGAGCCGTATGAAGACGACTACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTCAACCAGCGCATCGCGGCGCGCTTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGCGTGAGCACCTTGCCGACCCTGTTCGGCGAGA
AGGTGGTGCTGCGTATCCTGGACGCCAGTGCGGCCAAGCTCGGTATCGAGAAGCTGGGTTACGAGGCGGACCAGCAGAAG
CTGTTCCTGGATGCGATCCACAAGCCTTACGGCATGGTGCTGGTGACCGGGCCCACCGGTTCGGGCAAGACGGTGTCGCT
GTATACCGCGCTCGGGATTCTCAACGACGAGACGCGCAATATTTCCACGGCCGAGGATCCGGTCGAAATCCGCCTGCCTG
GCGTCAATCAGGTGCAGCAGAACGTCAAGCGGGGCATGACGTTTGCCGCGGCGCTGCGCTCGTTCCTGCGTCAGGACCCG
GACATCATCATGGTGGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACTGGCCACATGGT
GCTGTCGACACTGCACACCAACGATGCGCCGCAGACCATCGCGCGTCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCTCGTCGGTGACTCTGGTCATCGCGCAGCGCTTGGCGCGGCGCTTGTGCAACAACTGCAAGCGCAAGTCGACGCTACCG
GAGCATGCGCTGCTGGCGGAGGGCTTTACACCGGAGCAGGTTGCGAACATCGAGCTCTATGAAGCGGTCGGTTGCGATGA
GTGCACGGAAGGCTACAAGGGCCGTACCGGCATCTATCAGGTGATGCCGATGACGGACGAAATCGGCGCGATCGTGCTGG
AAGGCGGCAATGCGATGCAGATCGCCGAGGCTGCGCAGAAGATCGGTATCCGCGACTTGCGCCAGTCGGCATTGATGAAG
GCTTCGCACGGCGTGACCAGCCTGGCCGAGATCAATCGTGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(50-153)


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

55.81

98.44

0.549
  pilB Acinetobacter baylyi ADP1

55.458

98.44

0.546
  pilB Legionella pneumophila strain ERS1305867

51.845

98.614

0.511
  pilF Neisseria gonorrhoeae MS11

49.296

98.44

0.485
  pilB Vibrio cholerae strain A1552

49.728

95.494

0.475
  pilB Vibrio campbellii strain DS40M4

45.47

99.48

0.452
  pilB Vibrio parahaemolyticus RIMD 2210633

46.595

96.707

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

35.902

100

0.38

Multiple sequence alignment