Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JH301_RS05600 Genome accession   NZ_CP066981
Coordinates   1326559..1328292 (+) Length   577 a.a.
NCBI ID   WP_227971327.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain 28-1     
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 1306674..1335047 1326559..1328292 within 0


Gene organization within MGE regions


Location: 1306674..1335047
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH301_RS05510 (JH301_05490) - 1306674..1307024 (+) 351 WP_274316879.1 hypothetical protein -
  JH301_RS05515 (JH301_05495) - 1307314..1307544 (-) 231 WP_165349436.1 hypothetical protein -
  JH301_RS05520 (JH301_05500) - 1307608..1307763 (+) 156 WP_129588884.1 hypothetical protein -
  JH301_RS05525 (JH301_05505) - 1307940..1308335 (+) 396 WP_016945003.1 hypothetical protein -
  JH301_RS05530 (JH301_05510) - 1308426..1308818 (+) 393 WP_129588885.1 H-NS family nucleoid-associated regulatory protein -
  JH301_RS05535 (JH301_05515) glgX 1309353..1311482 (-) 2130 WP_129588886.1 glycogen debranching protein GlgX -
  JH301_RS05540 (JH301_05520) rimK 1311975..1312850 (+) 876 WP_011038222.1 30S ribosomal protein S6--L-glutamate ligase -
  JH301_RS05545 (JH301_05525) - 1313500..1314177 (+) 678 WP_003490678.1 response regulator transcription factor -
  JH301_RS05550 (JH301_05530) - 1314170..1315504 (+) 1335 WP_162808569.1 HAMP domain-containing sensor histidine kinase -
  JH301_RS05555 (JH301_05535) - 1315647..1316138 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  JH301_RS05560 (JH301_05540) - 1316135..1316425 (-) 291 WP_014508712.1 DUF1778 domain-containing protein -
  JH301_RS05565 (JH301_05545) - 1316501..1316928 (-) 428 Protein_1075 SymE family type I addiction module toxin -
  JH301_RS05570 (JH301_05550) - 1317567..1322327 (-) 4761 WP_274497101.1 RHS repeat-associated core domain-containing protein -
  JH301_RS05575 (JH301_05555) coaE 1322472..1323092 (-) 621 WP_129588888.1 dephospho-CoA kinase -
  JH301_RS05580 (JH301_05560) - 1323106..1323969 (-) 864 WP_129588889.1 A24 family peptidase -
  JH301_RS05585 (JH301_05565) pilC 1323976..1325178 (-) 1203 WP_227971345.1 type II secretion system F family protein Machinery gene
  JH301_RS05590 (JH301_05570) - 1325604..1326020 (+) 417 WP_227971328.1 pilin -
  JH301_RS05595 (JH301_05575) - 1326109..1326519 (+) 411 WP_274316877.1 pilin -
  JH301_RS05600 (JH301_05580) pilB 1326559..1328292 (+) 1734 WP_227971327.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH301_RS05605 (JH301_05585) pilR 1328710..1330104 (-) 1395 WP_042594919.1 sigma-54 dependent transcriptional regulator Regulator
  JH301_RS05610 (JH301_05590) - 1330314..1331924 (-) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  JH301_RS05615 (JH301_05595) sucC 1332158..1333327 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH301_RS05620 (JH301_05600) sucD 1333352..1334227 (+) 876 WP_274498718.1 succinate--CoA ligase subunit alpha -
  JH301_RS05625 (JH301_05605) - 1334331..1334741 (+) 411 WP_319608033.1 DNA-binding protein -
  JH301_RS05630 (JH301_05610) - 1334745..1335047 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62805.97 Da        Isoelectric Point: 5.7640

>NTDB_id=523819 JH301_RS05600 WP_227971327.1 1326559..1328292(+) (pilB) [Xanthomonas campestris pv. campestris strain 28-1]
MNVANSPNLVGITGIARRLVQDGALEEAAARTAMDQATAAKIPLPQWFSEKKLVTASQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKHQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSMG
DDDEGMGDLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTQEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=523819 JH301_RS05600 WP_227971327.1 1326559..1328292(+) (pilB) [Xanthomonas campestris pv. campestris strain 28-1]
ATGAACGTGGCTAATTCTCCCAATCTAGTTGGAATTACTGGAATTGCTCGTCGTTTAGTCCAAGACGGAGCGTTGGAAGA
GGCTGCCGCTCGCACCGCAATGGACCAGGCTACGGCAGCCAAAATTCCCTTGCCGCAATGGTTCTCTGAGAAGAAGTTGG
TCACCGCATCCCAGCTCGCTGCCGCCAACGCGGTCGAGTTCGGCATGCCGCTGATGGATGTGTCGGTGTTCGATGCCAGT
CAGAATGCAGTCAAGCTGGTGAGTGAGGAGTTGCTCCAGAAGCATCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGTTT
GTTTGTGGGGGTGAGCAACCCGACCCAGACCCGTGCGCTGGACGACATCAAGTTCCATACTAATCTTGTGGTCGAGCCGA
TCCTCGTCGACGAGGATCAGATCCGGCGCACCTTGGAGCAGTGGCAGGCCAGCAATGCGGCGCTCGGTTCGTCGATGGGG
GACGACGACGAGGGGATGGGAGACCTAGACGTGTCCGCCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGATGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGATA
TCCACTTCGAGCCGTATGAAGACGACTACCGGGTGCGGTTGCGGATCGATGGGTTGTTGAAGAACGTAGCCAAGGCGCCG
GTGAAGCTCAACCAGCGCATCGCGGCGCGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAACTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCGACCTTGTTCGGCGAGA
AGGTGGTGCTGCGTATCCTGGACGCCAGTGCGGCCAAGCTTGGTATCGAGAAGCTGGGTTACGAGGCAGATCAGCAGAAG
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

56.514

98.44

0.556
  pilB Acinetobacter baylyi ADP1

55.106

98.44

0.542
  pilB Legionella pneumophila strain ERS1305867

52.289

98.44

0.515
  pilB Vibrio cholerae strain A1552

49.126

99.133

0.487
  pilF Neisseria gonorrhoeae MS11

48.592

98.44

0.478
  pilB Vibrio campbellii strain DS40M4

46.221

98.614

0.456
  pilB Vibrio parahaemolyticus RIMD 2210633

46.869

96.88

0.454