Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   BIU85_RS05545 Genome accession   NZ_CP017319
Coordinates   1277242..1278948 (+) Length   568 a.a.
NCBI ID   WP_198407549.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris str. CN18     
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 1261126..1285703 1277242..1278948 within 0


Gene organization within MGE regions


Location: 1261126..1285703
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BIU85_RS05450 - 1261126..1261542 (+) 417 WP_227971334.1 hypothetical protein -
  BIU85_RS23830 - 1261832..1262062 (-) 231 WP_157769280.1 hypothetical protein -
  BIU85_RS05455 - 1262126..1262281 (+) 156 WP_075285405.1 hypothetical protein -
  BIU85_RS05460 - 1262458..1262853 (+) 396 WP_016945003.1 hypothetical protein -
  BIU85_RS05465 - 1262944..1263336 (+) 393 WP_012437593.1 H-NS family nucleoid-associated regulatory protein -
  BIU85_RS05475 glgX 1263861..1265990 (-) 2130 WP_016945001.1 glycogen debranching protein GlgX -
  BIU85_RS05480 rimK 1266483..1267358 (+) 876 WP_016945000.1 30S ribosomal protein S6--L-glutamate ligase -
  BIU85_RS05485 - 1268008..1268685 (+) 678 WP_003490678.1 response regulator transcription factor -
  BIU85_RS05490 - 1268678..1270012 (+) 1335 WP_162808569.1 HAMP domain-containing sensor histidine kinase -
  BIU85_RS05495 - 1270155..1270646 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  BIU85_RS05500 - 1270643..1270933 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  BIU85_RS05505 - 1271008..1271409 (-) 402 WP_040940795.1 SymE family type I addiction module toxin -
  BIU85_RS05510 - 1271552..1272660 (+) 1109 WP_087942068.1 IS3 family transposase -
  BIU85_RS05520 coaE 1273145..1273768 (-) 624 WP_075285407.1 dephospho-CoA kinase -
  BIU85_RS05525 - 1273782..1274645 (-) 864 WP_075285408.1 A24 family peptidase -
  BIU85_RS05530 pilC 1274651..1275907 (-) 1257 WP_075285409.1 type II secretion system F family protein Machinery gene
  BIU85_RS05535 - 1276244..1276693 (+) 450 WP_075285410.1 pilin -
  BIU85_RS05540 - 1276809..1277183 (+) 375 WP_269467167.1 pilin -
  BIU85_RS05545 pilB 1277242..1278948 (+) 1707 WP_198407549.1 type IV-A pilus assembly ATPase PilB Machinery gene
  BIU85_RS05550 pilR 1279366..1280760 (-) 1395 WP_162808570.1 sigma-54 dependent transcriptional regulator Regulator
  BIU85_RS05555 - 1280970..1282580 (-) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  BIU85_RS05560 sucC 1282814..1283983 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  BIU85_RS05565 sucD 1284008..1284883 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  BIU85_RS05570 - 1284987..1285397 (+) 411 WP_029628876.1 DNA-binding protein -
  BIU85_RS05575 - 1285401..1285703 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 61819.88 Da        Isoelectric Point: 5.7655

>NTDB_id=197692 BIU85_RS05545 WP_198407549.1 1277242..1278948(+) (pilB) [Xanthomonas campestris pv. campestris str. CN18]
MGITGIARRLVQDGSLEEGAARSAMDQAAAAKIPLPQWFAERKLVSAAQLAAANAVEFGMPLMDVSVFDASQNAVKLVSE
ELLQKHQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSMGEDDEGMGDL
DVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAPVKLNQRIAA
RLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQKLFLDAIHKP
YGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDPDIIMVGEIR
DLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLPEHALLAEGF
TPEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMKASHGVTSLA
EINRVTKD

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=197692 BIU85_RS05545 WP_198407549.1 1277242..1278948(+) (pilB) [Xanthomonas campestris pv. campestris str. CN18]
ATCGGAATAACTGGAATAGCCCGTCGTTTGGTACAGGACGGCTCATTGGAAGAAGGCGCTGCGCGTTCAGCAATGGACCA
GGCTGCTGCCGCAAAAATTCCACTGCCTCAGTGGTTTGCTGAAAGAAAATTAGTATCTGCAGCTCAGCTCGCCGCAGCTA
ATGCCGTAGAGTTCGGCATGCCGCTGATGGATGTGTCGGTGTTTGACGCCAGCCAGAACGCGGTCAAGTTGGTCAGTGAG
GAGTTGCTTCAGAAGCATCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGGTTGTTTGTGGGGGTGAGCAACCCAACCCA
GACCCGTGCGCTGGACGACATCAAGTTCCATACTAATCTTGTGGTCGAGCCGATCCTCGTCGACGAGGATCAGATCCGGC
GCACCTTGGAGCAGTGGCAGGCCAGCAATGCGGCGCTCGGTTCGTCGATGGGGGAAGACGACGAGGGGATGGGAGACCTA
GACGTGTCCGCCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGATGCCAAGGGCGATGACACGCCGGTGGT
GAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACATCCATTTCGAGCCGTATGAAGACGACT
ACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCGGTGAAGCTCAACCAGCGCATCGCGGCG
CGCTTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAAGACGGGCGCATCAAGCTCAACCTGTCCAA
GACCAAGCAGATCGACTTCCGTGTGAGTACCTTGCCGACCCTGTTCGGCGAGAAGGTGGTGCTGCGTATCCTGGACGCCA
GTGCGGCCAAGCTCGGTATCGAGAAGCTGGGCTATGAGGCGGACCAGCAGAAGCTGTTCCTGGATGCGATCCACAAGCCC
TACGGCATGGTGCTGGTGACCGGGCCGACTGGTTCGGGCAAGACGGTGTCGCTGTATACCGCGCTCGGGATTCTCAACGA
CGAGACGCGCAATATTTCCACTGCTGAGGATCCGGTCGAAATCCGCTTGCCCGGCGTCAATCAGGTGCAGCAGAACGTCA
AGCGGGGCATGACGTTTGCGGCGGCGCTGCGCTCGTTCCTGCGTCAGGACCCGGACATCATCATGGTCGGCGAAATCCGC
GACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGCCACATGGTGCTGTCGACGTTGCACACCAACGATGC
GCCGCAGACCATTGCGCGTCTGATGAACATGGGCATCGCGCCGTACAACATCACCTCGTCGGTGACCCTGGTCATCGCGC
AGCGCTTGGCACGGCGGCTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCGGAACATGCGCTGCTGGCGGAAGGCTTT
ACGCCGGAGCAGGTTGCGAACATCGAGCTCTATGAGGCGGTCGGTTGCGATGAATGCACGGAAGGCTACAAGGGCCGCAC
CGGTATCTATCAGGTGATGCCGATGACGGACGAAATCGGCGCGATCGTGCTGGAAGGCGGCAATGCGATGCAGATCGCCG
AGGCCGCGCAGAAGATCGGTATCCGCGACCTGCGCCAGTCGGCGTTGATGAAGGCTTCGCACGGCGTGACCAGCCTGGCC
GAGATCAATCGTGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(192-459)

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

(40-144)


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

100

0.562
  pilB Acinetobacter baylyi ADP1

55.458

100

0.555
  pilB Legionella pneumophila strain ERS1305867

52.641

100

0.526
  pilF Neisseria gonorrhoeae MS11

48.592

100

0.486
  pilB Vibrio cholerae strain A1552

49.548

97.359

0.482
  pilB Vibrio campbellii strain DS40M4

46.397

100

0.465
  pilB Vibrio parahaemolyticus RIMD 2210633

46.691

98.415

0.46
  pilF Thermus thermophilus HB27

39.499

91.373

0.361

Multiple sequence alignment