Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NMB96_RS23225 Genome accession   NZ_CP101417
Coordinates   5418661..5420397 (-) Length   578 a.a.
NCBI ID   WP_023904907.1    Uniprot ID   -
Organism   Xanthomonas hortorum strain jj2001     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5413661..5425397
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMB96_RS23205 (NMB96_23180) - 5414636..5416249 (+) 1614 WP_043889861.1 HAMP domain-containing sensor histidine kinase -
  NMB96_RS23210 (NMB96_23185) pilR 5416334..5417782 (+) 1449 WP_181018098.1 sigma-54 dependent transcriptional regulator Regulator
  NMB96_RS23215 (NMB96_23190) - 5417856..5418038 (+) 183 WP_074066024.1 YhfG family protein -
  NMB96_RS23220 (NMB96_23195) - 5418035..5418652 (+) 618 WP_255085842.1 Fic family protein -
  NMB96_RS23225 (NMB96_23200) pilB 5418661..5420397 (-) 1737 WP_023904907.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NMB96_RS23230 (NMB96_23205) pilA2 5420650..5421075 (-) 426 WP_023904908.1 pilin Machinery gene
  NMB96_RS23235 (NMB96_23210) pilC 5421428..5422687 (+) 1260 WP_023904909.1 type II secretion system F family protein Machinery gene
  NMB96_RS23240 (NMB96_23215) - 5422694..5423557 (+) 864 WP_002812278.1 A24 family peptidase -
  NMB96_RS23245 (NMB96_23220) coaE 5423571..5424194 (+) 624 WP_023904910.1 dephospho-CoA kinase -
  NMB96_RS23250 (NMB96_23225) - 5424397..5425377 (+) 981 WP_183086603.1 IS5 family transposase -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62967.20 Da        Isoelectric Point: 5.4552

>NTDB_id=710106 NMB96_RS23225 WP_023904907.1 5418661..5420397(-) (pilB) [Xanthomonas hortorum strain jj2001]
MNAFSSVNLVGITGIARRLVQDGALEETVARSAMEQATLAKIPLPQWFAEKKLVSSAQLAAANAVEFGMPLLDMSSFDAS
QNAIKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQANSASFGSSMG
DDDEEMGDLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLSQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKAPLP
EHALLAEGFTAEQIAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQRIGIRDLRQSALV
KAAHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=710106 NMB96_RS23225 WP_023904907.1 5418661..5420397(-) (pilB) [Xanthomonas hortorum strain jj2001]
ATGAATGCTTTTAGCTCAGTCAACCTTGTTGGCATAACCGGTATTGCTCGTCGCTTGGTGCAGGATGGGGCTTTAGAAGA
GACGGTTGCTCGGTCCGCCATGGAGCAGGCAACTCTCGCCAAAATCCCGTTGCCTCAATGGTTTGCTGAGAAGAAGCTGG
TTAGCAGTGCGCAGCTTGCCGCAGCAAATGCCGTTGAATTTGGCATGCCGTTGTTGGATATGTCGTCTTTCGATGCTAGC
CAGAATGCGATCAAGCTGGTCAGTGAGGAGTTGCTTCAGAAATACCAGGTGCTGCCGTTGTTCAAGCGCGGCAATCGGTT
GTTCGTGGGGGTGAGCAACCCGACCCAGACGCGTGCGCTGGACGACATCAAGTTCCACACCAATCTGGTTGTCGAGCCGA
TTTTGGTCGATGAAGATCAGATTCGTCGCACATTGGAGCAATGGCAGGCGAATAGCGCTTCGTTTGGCTCGTCAATGGGT
GACGATGACGAAGAGATGGGGGACCTGGACGTCTCGGCCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGATGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCCGACA
TCCATTTCGAGCCGTATGAAGACGACTACCGGGTGCGCTTGCGGATCGACGGCTTGCTGAAGAACGTAGCCAAGGCGCCG
GTAAAGCTGAGCCAGCGCATTGCGGCGCGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
TGGGCGTATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTCAGCACCTTGCCGACCTTGTTTGGCGAGA
AGGTGGTGCTGCGTATTCTGGACGCCAGTGCGGCCAAGTTGGGAATCGAGAAGCTGGGCTACGAGGCGGATCAGCAGAAG
TTGTTCCTGGATGCGATCCACAAGCCGTACGGCATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGTT
GTATACGGCGCTGGGCATCTTGAACGACGAGACGCGCAACATCTCCACGGCCGAGGATCCGGTCGAAATCCGCTTGCCGG
GCGTCAATCAGGTGCAGCAAAACGTCAAGCGCGGCATGACGTTTGCTGCGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCACAGACCGGTCACATGGT
GTTGTCGACGCTGCATACCAACGATGCGCCGCAGACCATCGCGCGTCTGATGAACATGGGCATTGCGCCGTACAACATCA
CTTCGTCGGTGACCTTGGTTATTGCGCAGCGTCTGGCGCGGCGGTTGTGCAATAACTGCAAGCGCAAGGCACCGCTGCCG
GAGCACGCGCTGTTGGCCGAAGGGTTCACCGCTGAGCAGATCGCTGCCGGAATCGAACTGTACGAGGCGGTCGGCTGCGA
CGAGTGCACCGAAGGTTATAAGGGCCGTACCGGTATCTACCAGGTGATGCCGATGACCGACGAGATCGGCGCGATCGTGC
TGGAAGGCGGTAACGCGATGCAGATCGCCGAGGCGGCGCAGAGAATCGGCATCCGCGATTTACGGCAGTCGGCGCTGGTG
AAGGCGGCACATGGGGTGACGAGCTTGGCTGAGATCAATCGGGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

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

(49-152)

Type II/IV secretion system protein (T2SSE)

(201-468)


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 baylyi ADP1

55.268

100

0.554
  pilB Acinetobacter baumannii D1279779

55.634

98.27

0.547
  pilB Legionella pneumophila strain ERS1305867

52.197

98.443

0.514
  pilB Vibrio cholerae strain A1552

48.517

99.135

0.481
  pilF Neisseria gonorrhoeae MS11

48.944

98.27

0.481
  pilB Vibrio campbellii strain DS40M4

46.221

98.443

0.455
  pilB Vibrio parahaemolyticus RIMD 2210633

46.869

96.713

0.453
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.686

94.81

0.367
  pilF Thermus thermophilus HB27

40.307

90.138

0.363