Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABFU18_RS05450 Genome accession   NZ_CP155930
Coordinates   1287151..1288881 (+) Length   576 a.a.
NCBI ID   WP_057671826.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain CFBP 4954     
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)
ICE 1262686..1318297 1287151..1288881 within 0


Gene organization within MGE regions


Location: 1262686..1318297
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU18_RS05315 (ABFU18_05315) - 1264065..1265209 (+) 1145 WP_274349786.1 IS3 family transposase -
  ABFU18_RS05320 (ABFU18_05320) - 1265758..1266237 (+) 480 WP_075286085.1 RadC family protein -
  ABFU18_RS05325 (ABFU18_05325) - 1266308..1266499 (+) 192 WP_221261829.1 hypothetical protein -
  ABFU18_RS05330 (ABFU18_05330) - 1266872..1267288 (+) 417 WP_147309009.1 hypothetical protein -
  ABFU18_RS05335 (ABFU18_05335) - 1268277..1268702 (+) 426 Protein_1033 XVIPCD domain-containing protein -
  ABFU18_RS05340 (ABFU18_05340) - 1268730..1268984 (-) 255 WP_057671639.1 hypothetical protein -
  ABFU18_RS05345 (ABFU18_05345) - 1269251..1270846 (+) 1596 WP_192012501.1 MobA/MobL family protein -
  ABFU18_RS05350 (ABFU18_05350) - 1270919..1271287 (-) 369 WP_225443877.1 transcriptional regulator -
  ABFU18_RS05355 (ABFU18_05355) - 1271295..1271576 (-) 282 WP_011348355.1 DUF6516 family protein -
  ABFU18_RS05360 (ABFU18_05360) - 1271642..1271983 (-) 342 WP_081020748.1 hypothetical protein -
  ABFU18_RS05365 (ABFU18_05365) - 1272709..1273059 (+) 351 WP_225443878.1 hypothetical protein -
  ABFU18_RS05370 (ABFU18_05370) - 1273358..1273588 (-) 231 WP_157382680.1 hypothetical protein -
  ABFU18_RS05375 (ABFU18_05375) - 1273652..1273798 (+) 147 WP_040940792.1 hypothetical protein -
  ABFU18_RS05380 (ABFU18_05380) - 1273983..1274378 (+) 396 WP_042594933.1 hypothetical protein -
  ABFU18_RS05385 (ABFU18_05385) - 1274469..1274861 (+) 393 WP_012437593.1 H-NS family nucleoid-associated regulatory protein -
  ABFU18_RS05390 (ABFU18_05390) - 1274976..1275326 (-) 351 WP_228415051.1 hypothetical protein -
  ABFU18_RS05395 (ABFU18_05395) glgX 1275396..1277525 (-) 2130 WP_057671651.1 glycogen debranching protein GlgX -
  ABFU18_RS05400 (ABFU18_05400) rimK 1278018..1278893 (+) 876 WP_016945000.1 30S ribosomal protein S6--L-glutamate ligase -
  ABFU18_RS05405 (ABFU18_05405) - 1279543..1280220 (+) 678 WP_003490678.1 response regulator transcription factor -
  ABFU18_RS05410 (ABFU18_05410) - 1280213..1281547 (+) 1335 WP_057671653.1 HAMP domain-containing sensor histidine kinase -
  ABFU18_RS05415 (ABFU18_05415) - 1281690..1282181 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  ABFU18_RS05420 (ABFU18_05420) - 1282178..1282468 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  ABFU18_RS05425 (ABFU18_05425) - 1282543..1282944 (-) 402 WP_040940795.1 SymE family type I addiction module toxin -
  ABFU18_RS05430 (ABFU18_05430) coaE 1283476..1284099 (-) 624 WP_011038217.1 dephospho-CoA kinase -
  ABFU18_RS05435 (ABFU18_05435) - 1284113..1284976 (-) 864 WP_057671659.1 A24 family peptidase -
  ABFU18_RS05440 (ABFU18_05440) pilC 1284983..1286245 (-) 1263 WP_057671824.1 type II secretion system F family protein Machinery gene
  ABFU18_RS05445 (ABFU18_05445) pilA 1286587..1287015 (+) 429 WP_057671660.1 pilin Machinery gene
  ABFU18_RS05450 (ABFU18_05450) pilB 1287151..1288881 (+) 1731 WP_057671826.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU18_RS05460 (ABFU18_05460) pilR 1289300..1290694 (-) 1395 WP_057671663.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU18_RS05465 (ABFU18_05465) - 1290903..1292513 (-) 1611 WP_057671664.1 PAS domain-containing sensor histidine kinase -
  ABFU18_RS05470 (ABFU18_05470) sucC 1292747..1293916 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFU18_RS05475 (ABFU18_05475) sucD 1293941..1294816 (+) 876 WP_057671668.1 succinate--CoA ligase subunit alpha -
  ABFU18_RS05480 (ABFU18_05480) - 1294920..1295330 (+) 411 WP_029217117.1 CopG family ribbon-helix-helix protein -
  ABFU18_RS05485 (ABFU18_05485) - 1295334..1295636 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -
  ABFU18_RS05490 (ABFU18_05490) - 1295636..1297291 (+) 1656 WP_057671669.1 NAD+ synthase -
  ABFU18_RS05495 (ABFU18_05495) - 1297285..1298271 (-) 987 WP_057671671.1 hypothetical protein -
  ABFU18_RS05500 (ABFU18_05500) - 1298723..1299604 (-) 882 WP_011038204.1 outer membrane protein assembly factor BamD -
  ABFU18_RS05505 (ABFU18_05505) rluD 1299727..1300722 (+) 996 WP_057671673.1 23S rRNA pseudouridine(1911/1915/1917) synthase RluD -
  ABFU18_RS05510 (ABFU18_05510) pgeF 1300724..1301524 (+) 801 WP_050911331.1 peptidoglycan editing factor PgeF -
  ABFU18_RS05515 (ABFU18_05515) - 1301545..1302042 (+) 498 WP_050911332.1 DUF4166 domain-containing protein -
  ABFU18_RS05520 (ABFU18_05520) - 1302029..1302448 (+) 420 WP_012437616.1 thiol-disulfide oxidoreductase DCC family protein -
  ABFU18_RS05525 (ABFU18_05525) - 1303084..1304952 (-) 1869 WP_040940808.1 methyl-accepting chemotaxis protein -
  ABFU18_RS05530 (ABFU18_05530) - 1305484..1307919 (-) 2436 WP_029628877.1 glucose/quinate/shikimate family membrane-bound PQQ-dependent dehydrogenase -
  ABFU18_RS05535 (ABFU18_05535) otsA 1308870..1310237 (-) 1368 WP_011038197.1 alpha,alpha-trehalose-phosphate synthase (UDP-forming) -
  ABFU18_RS05540 (ABFU18_05540) - 1310234..1312012 (-) 1779 WP_040940809.1 glycoside hydrolase family 15 protein -
  ABFU18_RS05545 (ABFU18_05545) otsB 1312062..1312820 (-) 759 WP_068573934.1 trehalose-phosphatase -
  ABFU18_RS05550 (ABFU18_05550) - 1313542..1315977 (-) 2436 WP_011038194.1 TonB-dependent siderophore receptor -
  ABFU18_RS05555 (ABFU18_05555) - 1316182..1316655 (+) 474 WP_012437623.1 DUF3574 domain-containing protein -
  ABFU18_RS05560 (ABFU18_05560) - 1316679..1317551 (+) 873 WP_050911334.1 XAC2610-related protein -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62599.69 Da        Isoelectric Point: 5.6001

>NTDB_id=999806 ABFU18_RS05450 WP_057671826.1 1287151..1288881(+) (pilB) [Xanthomonas campestris pv. campestris strain CFBP 4954]
MSAVAANLVGITGIARRLVQDGALDEISARTAMDQAAAAKTPLPQWFSERKLVSASQLAAANAVEFGMPLMDVSVFDASQ
NAVKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSLGS
DDDDIGDLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAPV
KLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQKL
FLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDPD
IIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLPE
HALLAEGFTPEQVANIDLYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMKA
SHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=999806 ABFU18_RS05450 WP_057671826.1 1287151..1288881(+) (pilB) [Xanthomonas campestris pv. campestris strain CFBP 4954]
ATGAGTGCAGTCGCGGCGAACTTAGTAGGAATTACAGGCATTGCACGCCGCCTAGTGCAAGACGGAGCGCTTGATGAAAT
AAGTGCCCGTACCGCCATGGACCAAGCCGCGGCAGCGAAGACTCCGCTTCCCCAATGGTTCTCAGAGAGAAAGCTGGTTT
CCGCGTCTCAACTGGCTGCAGCCAACGCAGTCGAGTTCGGCATGCCTCTCATGGACGTTTCCGTGTTCGATGCTAGTCAG
AACGCGGTCAAGCTGGTCAGTGAGGAGTTGCTCCAGAAGTATCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGGTTGTT
TGTGGGAGTGAGCAACCCGACCCAGACACGGGCGCTGGACGACATCAAGTTCCACACTAACTTGGTGGTCGAGCCGATTC
TGGTCGACGAGGACCAGATCCGTCGCACGCTAGAGCAGTGGCAGGCCAGTAACGCCGCGCTCGGCTCGTCGCTGGGGAGC
GACGATGACGATATAGGCGATCTAGACGTGTCCGCCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGATGC
CAAGGGCGATGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACATCC
ATTTCGAGCCCTATGAAGATGACTACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCGGTG
AAGCTCAACCAGCGCATCGCGGCGCGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGACGG
GCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGATTTTCGCGTGAGCACCTTGCCGACCTTGTTCGGCGAGAAGG
TGGTGTTGCGTATCCTGGACGCCAGTGCGGCCAAGCTCGGTATCGAGAAGCTGGGCTATGAGGCGGACCAGCAGAAGCTG
TTCCTGGATGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGCTGTA
TACCGCGCTCGGGATTCTCAACGACGAGACGCGCAATATTTCCACGGCCGAGGATCCGGTCGAAATCCGCTTGCCCGGCG
TCAATCAGGTGCAGCAGAACGTCAAGCGGGGCATGACGTTTGCGGCGGCGCTGCGCTCGTTCCTGCGTCAGGACCCGGAC
ATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACGGGCCACATGGTGCT
GTCGACGTTGCACACCAACGATGCGCCGCAGACCATTGCGCGTCTGATGAACATGGGCATCGCGCCGTACAACATCACCT
CGTCGGTGACCCTGGTCATCGCGCAGCGCTTGGCGCGGCGCTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCGGAA
CATGCGCTGCTGGCGGAAGGCTTTACGCCGGAGCAGGTTGCGAACATCGACCTCTATGAAGCGGTCGGTTGCGATGAGTG
CACGGAAGGCTACAAGGGCCGTACCGGCATCTATCAGGTGATGCCGATGACCGACGAGATCGGTGCGATCGTGCTGGAAG
GCGGCAATGCGATGCAGATCGCCGAGGCCGCACAGAAGATCGGTATCCGCGACCTGCGCCAGTCGGCGTTGATGAAGGCT
TCGCACGGGGTGACCAGCCTGGCCGAAATCAATCGTGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

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

(49-152)

Type II/IV secretion system protein (T2SSE)

(200-467)


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

56.338

98.611

0.556
  pilB Acinetobacter baylyi ADP1

55.282

98.611

0.545
  pilB Legionella pneumophila strain ERS1305867

52.083

100

0.521
  pilF Neisseria gonorrhoeae MS11

49.12

98.611

0.484
  pilB Vibrio cholerae strain A1552

49.817

94.792

0.472
  pilB Vibrio campbellii strain DS40M4

46.046

98.785

0.455
  pilB Vibrio parahaemolyticus RIMD 2210633

46.333

97.049

0.45
  pilB/pilB1 Synechocystis sp. PCC 6803

35.41

100

0.375

Multiple sequence alignment