Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABQF78_RS05215 Genome accession   NZ_CP168120
Coordinates   1232196..1233902 (+) Length   568 a.a.
NCBI ID   WP_176748120.1    Uniprot ID   -
Organism   Xanthomonas campestris strain WHRI 10255     
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 1229922..1241712 1232196..1233902 within 0


Gene organization within MGE regions


Location: 1229922..1241712
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABQF78_RS05205 (ABQF78_005205) pilC 1229922..1231181 (-) 1260 WP_070690003.1 type II secretion system F family protein Machinery gene
  ABQF78_RS05210 (ABQF78_005210) pilA2 1231534..1231953 (+) 420 WP_070690005.1 pilin Machinery gene
  ABQF78_RS05215 (ABQF78_005215) pilB 1232196..1233902 (+) 1707 WP_176748120.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABQF78_RS05220 (ABQF78_005220) - 1234085..1234822 (-) 738 WP_070690009.1 zeta toxin family protein -
  ABQF78_RS05225 (ABQF78_005225) - 1234822..1235184 (-) 363 WP_217694196.1 hypothetical protein -
  ABQF78_RS05230 (ABQF78_005230) pilR 1235376..1236770 (-) 1395 WP_070690014.1 sigma-54 dependent transcriptional regulator Regulator
  ABQF78_RS05235 (ABQF78_005235) - 1236979..1238589 (-) 1611 WP_070690016.1 PAS domain-containing sensor histidine kinase -
  ABQF78_RS05240 (ABQF78_005240) sucC 1238823..1239992 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  ABQF78_RS05245 (ABQF78_005245) sucD 1240017..1240892 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABQF78_RS05250 (ABQF78_005250) - 1240996..1241406 (+) 411 WP_029628876.1 CopG family ribbon-helix-helix protein -
  ABQF78_RS05255 (ABQF78_005255) - 1241410..1241712 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 61899.05 Da        Isoelectric Point: 5.6058

>NTDB_id=1042366 ABQF78_RS05215 WP_176748120.1 1232196..1233902(+) (pilB) [Xanthomonas campestris strain WHRI 10255]
MGITGIARRLVQDGVLDEGSARAAMDQAALAKVPLPQWFAEKKLVSAAQLAAANAIEFGMPLMDVSVFDVNQNAVKLVSE
ELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQAGNASFGSALGGDDEEMGDL
DVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAPVKLNQRIAA
RLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQKLFLDAIHKP
YGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDPDIIMVGEIR
DLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLPEHALLAEGF
TPEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMKASHGVTSLA
EINRVTKD

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=1042366 ABQF78_RS05215 WP_176748120.1 1232196..1233902(+) (pilB) [Xanthomonas campestris strain WHRI 10255]
GTGGGTATCACAGGAATAGCACGGCGTTTGGTTCAAGACGGCGTACTTGATGAAGGGAGCGCTCGCGCTGCGATGGATCA
GGCAGCATTGGCGAAAGTGCCGCTTCCTCAGTGGTTCGCGGAAAAGAAGCTTGTGTCAGCTGCTCAACTCGCAGCTGCTA
ACGCAATCGAGTTTGGCATGCCGTTGATGGACGTGTCTGTTTTCGACGTCAACCAGAACGCAGTCAAGCTGGTCAGTGAG
GAGTTGCTTCAGAAATACCAGGTGCTGCCGCTGTTCAAGCGCGGCAATCGGTTGTTCGTGGGGGTGAGCAACCCGACCCA
GACCAGGGCGCTGGACGATATCAAGTTCCACACCAATCTGGTGGTGGAGCCGATCCTGGTCGATGAGGACCAGATCCGTA
GGACGTTGGAGCAATGGCAGGCAGGAAACGCGTCCTTTGGCTCGGCGCTTGGTGGCGACGACGAGGAGATGGGGGACCTA
GACGTGTCCGCCGGGGACGAGGACATGGGCGCCGGTGGGGATTCCGGGGTCGATGCCAAGGGCGATGACACGCCGGTGGT
GAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCGGACATCCATTTCGAGCCGTATGAAGACGACT
ACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCGGTGAAGCTCAACCAGCGCATCGCGGCG
CGCCTGAAGGTGATGTCGCAGCTGGACATTGCCGAGAAGCGGGTGCCGCAGGACGGACGCATCAAGCTCAACCTGTCCAA
GACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCGACCCTGTTCGGCGAGAAGGTGGTGTTGCGTATCCTGGACGCCA
GTGCGGCCAAGCTCGGTATCGAGAAGCTGGGCTACGAGGCGGATCAGCAGAAGCTGTTCCTGGATGCGATCCACAAGCCC
TACGGCATGGTGCTGGTAACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGTTGTATACGGCGCTGGGCATCCTCAACGA
TGAGACGCGCAATATTTCCACGGCCGAAGATCCGGTCGAAATCCGCCTGCCCGGCGTCAATCAGGTGCAGCAGAACGTCA
AGCGCGGCATGACGTTCGCTGCGGCGTTGCGCTCGTTCCTGCGTCAGGACCCGGACATCATCATGGTCGGCGAAATCCGC
GACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACGGGCCATATGGTGCTGTCGACACTGCACACCAATGATGC
GCCGCAGACCATCGCGCGTCTGATGAACATGGGCATTGCGCCGTACAACATCACCTCGTCGGTGACCTTGGTCATTGCAC
AGCGTCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCGGAACATGCGCTGCTGGCGGAAGGCTTT
ACGCCGGAGCAGGTTGCGAACATCGAGCTCTATGAAGCGGTCGGTTGCGATGAGTGCACGGAAGGCTACAAGGGCCGTAC
CGGCATCTATCAGGTGATGCCGATGACCGATGAAATCGGTGCGATCGTGCTGGAAGGCGGCAATGCGATGCAGATCGCCG
AGGCTGCGCAGAAGATCGGTATCCGCGACCTGCGCCAGTCGGCGTTGATGAAGGCTTCGCACGGCGTGACCAGCCTGGCC
GAGATCAATCGTGTGACGAAGGATTGA

Domains

Predicted by InterproScan.

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

(40-141)

Type II/IV secretion system protein (T2SSE)

(192-459)


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

55.986

100

0.56
  pilB Acinetobacter baylyi ADP1

55.986

100

0.56
  pilB Legionella pneumophila strain ERS1305867

52.465

100

0.525
  pilB Vibrio cholerae strain A1552

48.951

100

0.493
  pilF Neisseria gonorrhoeae MS11

49.12

100

0.491
  pilB Vibrio campbellii strain DS40M4

45.518

100

0.456
  pilB Vibrio parahaemolyticus RIMD 2210633

45.796

98.415

0.451
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.313

92.254

0.363
  pilF Thermus thermophilus HB27

39.499

91.373

0.361

Multiple sequence alignment