Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACLVWB_RS15710 Genome accession   NZ_LR962645
Coordinates   3661510..3663237 (-) Length   575 a.a.
NCBI ID   WP_289882848.1    Uniprot ID   -
Organism   Xanthomonas arboricola isolate Xanthomonas sp. CPBF 1567     
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 3655335..3682296 3661510..3663237 within 0


Gene organization within MGE regions


Location: 3655335..3682296
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACLVWB_RS15685 (X12_003126) - 3655335..3655718 (+) 384 WP_289986106.1 hypothetical protein -
  ACLVWB_RS15690 (X12_003127) sucD 3655795..3656670 (-) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ACLVWB_RS15695 (X12_003128) sucC 3656695..3657864 (-) 1170 WP_016901264.1 ADP-forming succinate--CoA ligase subunit beta -
  ACLVWB_RS15700 (X12_003129) - 3658096..3659709 (+) 1614 WP_016901263.1 sensor histidine kinase -
  ACLVWB_RS15705 (X12_003130) pilR 3659902..3661296 (+) 1395 WP_016901261.1 sigma-54-dependent transcriptional regulator Regulator
  ACLVWB_RS15710 (X12_003131) pilB 3661510..3663237 (-) 1728 WP_289882848.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACLVWB_RS15715 (X12_003132) - 3663384..3663845 (-) 462 WP_345783685.1 pilin -
  ACLVWB_RS15720 (X12_003133) pilA 3663925..3664347 (-) 423 WP_026064717.1 pilin Machinery gene
  ACLVWB_RS15725 (X12_003134) pilC 3664781..3665938 (+) 1158 WP_386051418.1 type II secretion system F family protein Machinery gene
  ACLVWB_RS15730 (X12_003135) - 3665945..3666808 (+) 864 WP_002812278.1 prepilin peptidase -
  ACLVWB_RS15735 (X12_003136) coaE 3666822..3667445 (+) 624 WP_016904087.1 dephospho-CoA kinase -
  ACLVWB_RS15740 (X12_003137) - 3667971..3668369 (+) 399 WP_016904088.1 SymE family type I addiction module toxin -
  ACLVWB_RS15745 (X12_003138) - 3668474..3669808 (-) 1335 WP_016904089.1 sensor histidine kinase -
  ACLVWB_RS15750 (X12_003139) - 3669801..3670478 (-) 678 WP_006448355.1 response regulator transcription factor -
  ACLVWB_RS15755 (X12_003140) - 3670510..3670980 (-) 471 WP_026064719.1 hypothetical protein -
  ACLVWB_RS15760 (X12_003141) rimK 3671207..3672112 (-) 906 WP_166767257.1 30S ribosomal protein S6--L-glutamate ligase -
  ACLVWB_RS15765 (X12_003142) glgX 3672602..3674734 (+) 2133 WP_016904092.1 glycogen debranching protein GlgX -
  ACLVWB_RS15770 (X12_003143) - 3675406..3675798 (-) 393 WP_023904915.1 H-NS family nucleoid-associated regulatory protein -
  ACLVWB_RS15775 (X12_003144) - 3675887..3676273 (-) 387 WP_026064907.1 hypothetical protein -
  ACLVWB_RS15780 (X12_003145) - 3676848..3677360 (-) 513 WP_049805061.1 ImmA/IrrE family metallo-endopeptidase -
  ACLVWB_RS15785 (X12_003146) - 3677345..3677551 (-) 207 WP_374057769.1 ImmA/IrrE family metallo-endopeptidase -
  ACLVWB_RS15790 (X12_003147) - 3678095..3678664 (+) 570 WP_087962438.1 hypothetical protein -
  ACLVWB_RS15795 (X12_003148) - 3678736..3680016 (+) 1281 WP_080591431.1 retropepsin-like aspartic protease -
  ACLVWB_RS15800 (X12_003149) - 3680506..3680868 (+) 363 WP_016904888.1 hypothetical protein -
  ACLVWB_RS15805 (X12_003150) - 3680965..3682296 (+) 1332 WP_016905121.1 IS4 family transposase -

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 62488.68 Da        Isoelectric Point: 5.6021

>NTDB_id=1134868 ACLVWB_RS15710 WP_289882848.1 3661510..3663237(-) (pilB) [Xanthomonas arboricola isolate Xanthomonas sp. CPBF 1567]
MNVANLVGITGIARRLVQDGVLDEVNARAAMDQAALAKVPLPQWFAEKKLVSAAQLAAANAVEFGMPLMDVSVFDASQNA
VKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSLGDDD
DDMGDLDVSSGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAPVKL
NQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIEKLGYEADQQKLFL
EAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDII
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLPEHA
LLAEGFTPAQIAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALVKAA
HGVTSLAEINRVTKD

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=1134868 ACLVWB_RS15710 WP_289882848.1 3661510..3663237(-) (pilB) [Xanthomonas arboricola isolate Xanthomonas sp. CPBF 1567]
ATGAACGTCGCCAATCTAGTCGGAATCACAGGGATAGCGCGACGGTTAGTTCAAGATGGTGTACTTGACGAAGTTAATGC
TCGAGCAGCAATGGATCAGGCTGCGTTGGCTAAGGTTCCACTGCCACAGTGGTTTGCTGAGAAGAAGCTAGTCTCAGCCG
CTCAGCTGGCTGCAGCCAATGCCGTCGAGTTCGGCATGCCGCTGATGGACGTGTCGGTCTTTGACGCAAGCCAGAACGCA
GTCAAGCTGGTCAGTGAAGAGTTGCTCCAGAAGTACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGGTTGTTCGTGGG
GGTGAGCAACCCAACCCAGACCAGGGCGCTGGACGATATCAAGTTCCACACCAATCTGGTGGTGGAGCCGATCCTGGTCG
ATGAGGATCAGATCCGTCGAACCTTGGAGCAGTGGCAAGCCAGCAATGCGGCGCTCGGCTCGTCGCTCGGTGACGACGAT
GACGACATGGGGGATCTGGACGTCTCCTCCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGATGCCAAGGG
CGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCCGACATCCATTTCG
AGCCGTACGAAGACGACTATCGGGTGCGCTTGCGCATCGATGGGCTGCTGAAGAATGTGGCCAAGGCACCGGTGAAGCTG
AACCAGCGCATCGCGGCGCGTCTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAACGGGTGCCGCAGGACGGGCGCAT
AAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGCGTGAGCACCTTGCCGACCTTGTTCGGCGAAAAGGTTGTGC
TGCGTATCCTGGACGGCAGCGCGGCCAAGCTGGGCATCGAGAAGCTGGGCTACGAGGCGGACCAGCAGAAGCTATTCCTG
GAGGCGATCCACAAACCCTACGGCATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGTTGTACACGGC
ACTGGGTATCCTCAACGACGAGACGCGCAACATCTCCACCGCCGAGGACCCCGTTGAAATTCGCTTGCCTGGCGTCAATC
AGGTGCAGCAGAACAACAAGCGCGGCATGACCTTTGCCGCGGCGCTGCGTTCGTTCTTGCGCCAGGATCCGGACATCATC
ATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCCGCGCAGACCGGTCACATGGTGCTGTCCAC
GCTGCATACCAACGACGCGCCACAGACCATCGCGCGTTTGATGAACATGGGCATCGCGCCTTACAACATTACTTCGTCGG
TGACCCTGGTGATCGCGCAGCGTCTGGCGCGGCGCCTGTGCAACAACTGCAAGCGCAAATCGACCTTGCCCGAGCATGCG
TTGCTGGCCGAAGGCTTCACGCCTGCGCAGATCGCTGCCGGGATCGAGCTGTATGAGGCGGTCGGTTGCGACGAGTGTAC
CGAAGGCTACAAGGGCCGTACCGGTATCTACCAGGTGATGCCGATGACCGACGAGATCGGCGCGATCGTGCTGGAAGGCG
GTAACGCGATGCAGATCGCCGAGGCGGCGCAGAAGATCGGCATCCGTGACCTGCGCCAGTCGGCGTTGGTCAAGGCGGCG
CACGGTGTGACCAGCCTGGCCGAGATCAACCGAGTGACGAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(198-465)

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

(46-150)


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

55.81

98.783

0.551
  pilB Acinetobacter baylyi ADP1

55.106

98.783

0.544
  pilB Legionella pneumophila strain ERS1305867

52.021

98.957

0.515
  pilB Vibrio cholerae strain A1552

48.354

100

0.485
  pilF Neisseria gonorrhoeae MS11

48.592

98.783

0.48
  pilB Vibrio campbellii strain DS40M4

45.167

98.957

0.447
  pilB Vibrio parahaemolyticus RIMD 2210633

45.213

98.087

0.443
  pilF Thermus thermophilus HB27

40.385

90.435

0.365
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.548

92.348

0.365

Multiple sequence alignment