Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACLQZY_RS15505 Genome accession   NZ_LR877306
Coordinates   3628300..3630033 (-) Length   577 a.a.
NCBI ID   WP_047124753.1    Uniprot ID   -
Organism   Xanthomonas arboricola isolate Xanthomonas sp. CPBF 796     
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 3621645..3653515 3628300..3630033 within 0


Gene organization within MGE regions


Location: 3621645..3653515
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACLQZY_RS15475 (X12_003082) - 3621645..3622037 (-) 393 WP_026064065.1 endonuclease domain-containing protein -
  ACLQZY_RS15480 (X12_003083) - 3622216..3622593 (+) 378 WP_411757940.1 hypothetical protein -
  ACLQZY_RS15485 (X12_003084) sucD 3622670..3623545 (-) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ACLQZY_RS15490 (X12_003085) sucC 3623570..3624739 (-) 1170 WP_053045679.1 ADP-forming succinate--CoA ligase subunit beta -
  ACLQZY_RS15495 (X12_003086) - 3624971..3626584 (+) 1614 WP_016901263.1 sensor histidine kinase -
  ACLQZY_RS15500 (X12_003087) pilR 3626777..3628171 (+) 1395 WP_053045681.1 sigma-54-dependent transcriptional regulator Regulator
  ACLQZY_RS15505 (X12_003088) pilB 3628300..3630033 (-) 1734 WP_047124753.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACLQZY_RS15510 (X12_003089) - 3630183..3630782 (-) 600 WP_047124752.1 class I SAM-dependent methyltransferase -
  ACLQZY_RS15515 (X12_003090) - 3630793..3631824 (-) 1032 WP_080959838.1 glycosyltransferase -
  ACLQZY_RS15520 (X12_003091) - 3631821..3632615 (-) 795 WP_052767998.1 glycosyltransferase family A protein -
  ACLQZY_RS15525 (X12_003092) - 3632620..3633000 (-) 381 WP_052767997.1 SMR family transporter -
  ACLQZY_RS15530 (X12_003093) - 3633346..3633762 (+) 417 WP_047124751.1 pilin -
  ACLQZY_RS15535 (X12_003094) - 3633818..3635785 (+) 1968 WP_146091317.1 hypothetical protein -
  ACLQZY_RS15540 (X12_003095) pilC 3635895..3637157 (+) 1263 WP_047124749.1 type II secretion system F family protein Machinery gene
  ACLQZY_RS15545 (X12_003096) - 3637164..3638027 (+) 864 WP_002812278.1 prepilin peptidase -
  ACLQZY_RS15550 (X12_003097) coaE 3638041..3638664 (+) 624 WP_047124748.1 dephospho-CoA kinase -
  ACLQZY_RS15555 (X12_003098) - 3639190..3639588 (+) 399 WP_016904088.1 SymE family type I addiction module toxin -
  ACLQZY_RS15560 (X12_003099) - 3639693..3641027 (-) 1335 WP_016904089.1 sensor histidine kinase -
  ACLQZY_RS15565 (X12_003100) - 3641020..3641697 (-) 678 WP_006448355.1 response regulator transcription factor -
  ACLQZY_RS15570 (X12_003101) - 3641729..3642199 (-) 471 WP_026064719.1 hypothetical protein -
  ACLQZY_RS15575 (X12_003102) rimK 3642426..3643331 (-) 906 WP_166767257.1 30S ribosomal protein S6--L-glutamate ligase -
  ACLQZY_RS15580 (X12_003103) glgX 3643821..3645953 (+) 2133 WP_016904092.1 glycogen debranching protein GlgX -
  ACLQZY_RS15585 (X12_003104) - 3646625..3647017 (-) 393 WP_023904915.1 H-NS family nucleoid-associated regulatory protein -
  ACLQZY_RS15590 (X12_003105) - 3647106..3647492 (-) 387 WP_026064907.1 hypothetical protein -
  ACLQZY_RS15595 (X12_003106) - 3648067..3648579 (-) 513 WP_049805061.1 ImmA/IrrE family metallo-endopeptidase -
  ACLQZY_RS15600 (X12_003107) - 3648564..3648770 (-) 207 WP_374057769.1 ImmA/IrrE family metallo-endopeptidase -
  ACLQZY_RS15605 (X12_003108) - 3649314..3649883 (+) 570 WP_087962438.1 hypothetical protein -
  ACLQZY_RS15610 (X12_003109) - 3649955..3651235 (+) 1281 WP_080591431.1 retropepsin-like aspartic protease -
  ACLQZY_RS15615 (X12_003110) - 3651725..3652087 (+) 363 WP_016904888.1 hypothetical protein -
  ACLQZY_RS15620 (X12_003111) - 3652184..3653515 (+) 1332 WP_016905121.1 IS4 family transposase -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62701.78 Da        Isoelectric Point: 5.4464

>NTDB_id=1132556 ACLQZY_RS15505 WP_047124753.1 3628300..3630033(-) (pilB) [Xanthomonas arboricola isolate Xanthomonas sp. CPBF 796]
MNSVVTANLVGITGIARRLVQDGALDEGAARTAMDQAATAKVPLPQWFSEKKLVTASQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSLG
DDDDDMGDLDVSSGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLSQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRRSTLP
EHALLAEGFTAEQIAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQRIGIRDLRQSALVK
AAHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=1132556 ACLQZY_RS15505 WP_047124753.1 3628300..3630033(-) (pilB) [Xanthomonas arboricola isolate Xanthomonas sp. CPBF 796]
ATGAATAGCGTCGTCACTGCCAACTTGGTTGGTATCACCGGCATCGCCCGCCGCCTTGTGCAGGACGGTGCTTTGGATGA
AGGCGCTGCGCGTACGGCGATGGATCAGGCCGCTACCGCTAAAGTGCCGTTGCCGCAGTGGTTCTCGGAGAAAAAGTTGG
TCACTGCATCTCAGCTCGCCGCAGCCAATGCGGTTGAGTTCGGTATGCCGCTGATGGATGTGTCGGTGTTCGACGCCAGC
CAGAACGCGGTCAAGCTGGTCAGCGAAGAGTTGCTCCAAAAGTACCAGGTGCTGCCGCTGTTCAAGCGCGGGAACCGGTT
GTTCGTGGGGGTGAGCAACCCAACCCAGACCAGGGCGCTGGACGATATCAAGTTCCACACCAATCTGGTGGTGGAGCCAA
TCCTGGTCGATGAGGACCAGATCCGTCGTACCTTGGAGCAGTGGCAGGCGAGCAATGCGGCGCTCGGCTCGTCGCTCGGT
GACGACGATGACGACATGGGGGATCTGGATGTCTCCTCCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTACTGGTGGATGCGATTCGGCGGGGAGCCTCCGACA
TCCATTTCGAGCCGTATGAAGACGATTACCGGGTGCGGTTGCGCATCGATGGGTTGTTGAAGAATGTGGCCAAGGCGCCG
GTGAAGCTGAGCCAGCGCATCGCGGCGCGCTTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGTATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGTACCTTGCCGACCCTGTTCGGCGAGA
AGGTGGTGTTGCGTATCCTGGACGCCAGTGCGGCCAAGCTGGGGATCGAGAAGCTGGGCTATGAGGCGGATCAGCAGAAG
CTGTTTCTGGATGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGTT
GTATACGGCGCTGGGCATCCTCAACGACGAGACGCGCAACATCTCCACGGCTGAGGATCCGGTTGAAATCCGCTTGCCTG
GCGTGAATCAGGTGCAGCAGAACGTCAAGCGCGGCATGACCTTCGCGGCTGCGTTGCGCTCGTTCCTGCGCCAGGATCCT
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GTTGTCGACGCTGCACACCAACGATGCGCCGCAGACCATTGCGCGTCTGATGAACATGGGCATTGCGCCGTACAACATCA
CTTCGTCGGTGACCTTGGTCATCGCGCAGCGTCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCAGATCGACGTTGCCC
GAGCATGCGTTGCTGGCGGAAGGGTTCACTGCAGAGCAGATCGCTGGTATCGAGCTGTACGAGGCGGTGGGCTGCGACGA
ATGCACCGAAGGCTACAAGGGCCGTACCGGTATCTACCAGGTGATGCCGATGACCGACGAAATCGGTGCGATCGTGCTGG
AAGGCGGCAACGCGATGCAGATCGCCGAGGCGGCGCAGAGAATCGGCATCCGCGATTTGCGGCAGTCGGCGCTGGTCAAG
GCGGCACATGGGGTCACGAGCCTGGCTGAGATCAATCGGGTGACCAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(50-153)


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

55.634

98.44

0.548
  pilB Acinetobacter baylyi ADP1

54.754

98.44

0.539
  pilB Legionella pneumophila strain ERS1305867

52.113

98.44

0.513
  pilB Vibrio cholerae strain A1552

48.691

99.307

0.484
  pilF Neisseria gonorrhoeae MS11

48.239

98.44

0.475
  pilB Vibrio campbellii strain DS40M4

45.694

98.614

0.451
  pilB Vibrio parahaemolyticus RIMD 2210633

45.648

97.574

0.445
  pilB/pilB1 Synechocystis sp. PCC 6803

35.437

100

0.38
  pilF Thermus thermophilus HB27

40.27

89.948

0.362

Multiple sequence alignment