Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABFU52_RS05135 Genome accession   NZ_CP155945
Coordinates   1217000..1218733 (+) Length   577 a.a.
NCBI ID   WP_129588892.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain MBG-39.2     
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 1199296..1225487 1217000..1218733 within 0


Gene organization within MGE regions


Location: 1199296..1225487
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU52_RS05045 (ABFU52_05040) - 1199296..1199712 (+) 417 WP_227971334.1 hypothetical protein -
  ABFU52_RS05050 (ABFU52_05045) - 1200002..1200232 (-) 231 WP_165349436.1 hypothetical protein -
  ABFU52_RS05055 (ABFU52_05050) - 1200296..1200451 (+) 156 WP_129588884.1 hypothetical protein -
  ABFU52_RS05060 (ABFU52_05055) - 1200628..1201023 (+) 396 WP_016945003.1 hypothetical protein -
  ABFU52_RS05065 (ABFU52_05060) - 1201114..1201506 (+) 393 WP_129588885.1 H-NS family nucleoid-associated regulatory protein -
  ABFU52_RS05070 (ABFU52_05065) glgX 1202041..1204170 (-) 2130 WP_129588886.1 glycogen debranching protein GlgX -
  ABFU52_RS05075 (ABFU52_05070) rimK 1204663..1205538 (+) 876 WP_011038222.1 30S ribosomal protein S6--L-glutamate ligase -
  ABFU52_RS05080 (ABFU52_05075) - 1206188..1206865 (+) 678 WP_003490678.1 response regulator transcription factor -
  ABFU52_RS05085 (ABFU52_05080) - 1206858..1208192 (+) 1335 WP_165349437.1 HAMP domain-containing sensor histidine kinase -
  ABFU52_RS05090 (ABFU52_05085) - 1208335..1208610 (-) 276 WP_230433394.1 GNAT family N-acetyltransferase -
  ABFU52_RS05095 (ABFU52_05090) - 1208658..1209766 (+) 1109 WP_129588887.1 IS3 family transposase -
  ABFU52_RS05100 - 1209783..1210577 (-) 795 Protein_989 type IV secretion protein Rhs -
  ABFU52_RS05105 - 1211805..1212722 (-) 918 Protein_990 hypothetical protein -
  ABFU52_RS05110 (ABFU52_05100) coaE 1212867..1213487 (-) 621 WP_129588888.1 dephospho-CoA kinase -
  ABFU52_RS05115 (ABFU52_05105) - 1213501..1214364 (-) 864 WP_129588889.1 A24 family peptidase -
  ABFU52_RS05120 (ABFU52_05110) pilC 1214371..1215627 (-) 1257 WP_129589289.1 type II secretion system F family protein Machinery gene
  ABFU52_RS05125 (ABFU52_05115) pilA/pilAI 1215987..1216397 (+) 411 WP_274497102.1 pilin Machinery gene
  ABFU52_RS05130 (ABFU52_05120) pilA/pilAI 1216472..1216879 (+) 408 WP_129588891.1 pilin Machinery gene
  ABFU52_RS05135 (ABFU52_05125) pilB 1217000..1218733 (+) 1734 WP_129588892.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU52_RS05140 (ABFU52_05130) pilR 1219151..1220545 (-) 1395 WP_165349438.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU52_RS05145 (ABFU52_05135) - 1220754..1222364 (-) 1611 WP_012437608.1 PAS domain-containing sensor histidine kinase -
  ABFU52_RS05150 (ABFU52_05140) sucC 1222598..1223767 (+) 1170 WP_012437609.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFU52_RS05155 (ABFU52_05145) sucD 1223792..1224667 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFU52_RS05160 (ABFU52_05150) - 1224771..1225181 (+) 411 WP_029628876.1 CopG family ribbon-helix-helix protein -
  ABFU52_RS05165 (ABFU52_05155) - 1225185..1225487 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62811.97 Da        Isoelectric Point: 5.6058

>NTDB_id=1000039 ABFU52_RS05135 WP_129588892.1 1217000..1218733(+) (pilB) [Xanthomonas campestris pv. campestris strain MBG-39.2]
MSAVTSANLVGITGIARRLVQDGALEEATARAAMDQATAAKIPLPQWFSEKKLVTASQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQSSNAALGSSMG
DDDEGMGDLDVSTGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTQEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=1000039 ABFU52_RS05135 WP_129588892.1 1217000..1218733(+) (pilB) [Xanthomonas campestris pv. campestris strain MBG-39.2]
ATGAGCGCAGTCACTTCCGCTAACTTGGTCGGTATAACCGGCATAGCCAGACGGCTAGTTCAGGACGGTGCGTTGGAAGA
GGCGACAGCGCGTGCTGCAATGGACCAGGCTACGGCAGCAAAGATTCCCCTGCCGCAATGGTTCTCTGAGAAGAAGTTGG
TCACCGCATCCCAGCTCGCTGCCGCCAACGCAGTCGAGTTCGGCATGCCGCTGATGGATGTGTCGGTGTTCGATGCCAGT
CAGAATGCAGTCAAGCTGGTGAGTGAGGAGTTGCTCCAGAAGTACCAGGTGCTGCCGCTGTTCAAGCGCGGCAATCGGTT
GTTCGTGGGGGTGAGCAACCCGACCCAGACCAGGGCGCTGGACGACATCAAGTTTCATACGAACCTGGTGGTCGAGCCGA
TCCTGGTTGATGAGGACCAGATTCGTCGCACACTGGAGCAGTGGCAGTCCAGCAATGCGGCGCTTGGTTCGTCGATGGGT
GACGACGACGAGGGGATGGGGGATCTGGACGTCTCCACTGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGATGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACA
TCCATTTCGAGCCGTATGAAGACGACTACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTCAACCAGCGCATCGCGGCACGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCAACCCTGTTCGGCGAGA
AGGTGGTGTTGCGTATCCTGGACGCCAGTGCGGCCAAGCTTGGTATCGAGAAGCTGGGTTACGAGGCAGATCAGCAGAAG
CTGTTCCTGGATGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTATACCGCACTCGGGATTCTCAACGACGAGACGCGCAATATTTCCACGGCCGAGGATCCGGTCGAAATCCGCCTGCCTG
GCGTCAATCAGGTGCAGCAGAACGTCAAGCGGGGCATGACGTTTGCCGCTGCGCTGCGCTCTTTCCTGCGTCAGGACCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GCTGTCGACGCTGCACACCAACGATGCGCCGCAAACCATTGCGCGTCTGATGAACATGGGTATCGCGCCGTACAACATTA
CCTCATCGGTGACCCTGGTCATCGCGCAGCGCCTGGCGCGGCGGCTGTGCAACAACTGTAAGCGCAAGTCGACGCTGCCG
GAACATGCGCTGCTGGCGGAAGGCTTTACGCAGGAGCAGGTTGCGAACATCGAGCTCTATGAGGCGGTCGGTTGCGATGA
ATGCACGGAAGGCTACAAGGGCCGCACCGGTATCTATCAGGTGATGCCGATGACCGATGAAATCGGCGCGATCGTGCTGG
AAGGCGGCAATGCGATGCAGATCGCCGAGGCCGCGCAGAAGATCGGTATCCGCGACCTGCGCCAGTCGGCGTTGATGAAG
GCTTCGCACGGGGTGACCAGCCTGGCTGAGATCAATCGGGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

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

(50-153)

Type II/IV secretion system protein (T2SSE)

(201-468)


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

55.786

100

0.56
  pilB Acinetobacter baylyi ADP1

55.095

100

0.553
  pilB Legionella pneumophila strain ERS1305867

51.937

98.44

0.511
  pilF Neisseria gonorrhoeae MS11

48.944

98.44

0.482
  pilB Vibrio cholerae strain A1552

50.182

95.321

0.478
  pilB Vibrio campbellii strain DS40M4

45.87

98.614

0.452
  pilB Vibrio parahaemolyticus RIMD 2210633

46.004

97.574

0.449
  pilB/pilB1 Synechocystis sp. PCC 6803

34.959

100

0.373

Multiple sequence alignment