Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NZ30_RS06020 Genome accession   NZ_CP009750
Coordinates   1356702..1358438 (+) Length   578 a.a.
NCBI ID   WP_058363696.1    Uniprot ID   -
Organism   Xanthomonas translucens pv. undulosa strain ICMP11055     
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 1359062..1369024 1356702..1358438 flank 624


Gene organization within MGE regions


Location: 1356702..1369024
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NZ30_RS06020 (NZ30_05865) pilB 1356702..1358438 (+) 1737 WP_058363696.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NZ30_RS06025 (NZ30_05870) - 1358613..1359065 (-) 453 WP_230811680.1 Fic family protein -
  NZ30_RS06030 (NZ30_05875) - 1359062..1359244 (-) 183 WP_003466380.1 YhfG family protein -
  NZ30_RS06035 (NZ30_05880) pilR 1359433..1360821 (-) 1389 WP_003466378.1 sigma-54 dependent transcriptional regulator Regulator
  NZ30_RS06040 (NZ30_05885) - 1360896..1362509 (-) 1614 WP_108084728.1 ATP-binding protein -
  NZ30_RS06045 (NZ30_05890) sucC 1362750..1363913 (+) 1164 WP_003466374.1 ADP-forming succinate--CoA ligase subunit beta -
  NZ30_RS06050 (NZ30_05895) sucD 1363937..1364809 (+) 873 WP_003466372.1 succinate--CoA ligase subunit alpha -
  NZ30_RS21540 (NZ30_05900) - 1365095..1366393 (+) 1299 WP_233243572.1 hypothetical protein -
  NZ30_RS21545 - 1366342..1366647 (+) 306 WP_003466368.1 PQQ-binding-like beta-propeller repeat protein -
  NZ30_RS20475 - 1366760..1369024 (-) 2265 WP_146169960.1 hypothetical protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62915.20 Da        Isoelectric Point: 6.3631

>NTDB_id=131844 NZ30_RS06020 WP_058363696.1 1356702..1358438(+) (pilB) [Xanthomonas translucens pv. undulosa strain ICMP11055]
MNAVTSANLVGITGIARRLVQDGALEETAARTAMAHAAEAKIPLPQWFSDKKLVTAAQLAAANALEFGMPLLDVSVFDAS
QSAMKLVSEELLHKHQVLPLFKRGNRLFVGMSNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDAIGDALG
DDDEAMGRLEVGAGDEDMGSGGETGVDAKGDDTPVVKFVNKMLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVARAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRVLDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAVALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRPTHLP
HNALLAEGFSEAEVAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIAQAAQKIGVKDLRQSALL
KARAGITSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=131844 NZ30_RS06020 WP_058363696.1 1356702..1358438(+) (pilB) [Xanthomonas translucens pv. undulosa strain ICMP11055]
ATGAACGCTGTGACATCCGCCAATCTTGTCGGCATCACCGGCATCGCGCGCCGCCTGGTTCAGGATGGCGCGCTCGAGGA
AACGGCTGCGCGGACCGCGATGGCGCATGCCGCCGAGGCCAAGATCCCGCTGCCGCAGTGGTTCTCGGACAAGAAGCTGG
TCACCGCGGCGCAGCTGGCCGCCGCCAATGCGCTGGAGTTCGGGATGCCGTTGCTGGACGTGTCGGTGTTCGATGCCAGC
CAGAGCGCGATGAAGCTGGTCAGCGAGGAGCTGTTGCACAAGCACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGTCT
GTTCGTCGGGATGAGCAATCCGACCCAGACCCGGGCGCTGGACGACATCAAGTTCCATACCAATCTGACGGTCGAGCCGA
TCCTGGTCGATGAGGACCAGATCCGGCGCACGCTGGAGCAATGGCAGGCGAGCAACGATGCGATCGGCGACGCGCTGGGC
GACGACGACGAGGCCATGGGCAGGCTTGAGGTCGGTGCCGGCGACGAGGACATGGGCAGCGGCGGCGAGACCGGCGTCGA
TGCCAAGGGCGACGATACGCCCGTGGTCAAGTTCGTGAACAAGATGCTGGTCGATGCGATCCGCCGCGGCGCGTCGGACA
TCCATTTCGAGCCGTACGAGGACGATTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAGGGCGCCG
GTCAAGCTCAACCAGCGCATTGCGGCGCGGCTCAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGA
CGGACGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGATTTCCGCGTCAGCACGCTGCCGACCTTGTTCGGCGAGA
AGATCGTGCTGCGTGTCCTCGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGCTACGAGCCGGAGCAGCAGAAG
CTGTTCCTGGATGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACAGTGTCGCT
GTACACCGCGCTGGGCATCCTCAACGACGAGACCCGCAACATCTCCACGGCCGAAGACCCGGTCGAAATCCGCCTGCCCG
GGGTCAACCAGGTACAGCAGAACAACAAGCGCGGCATGACCTTCGCCGTGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GCTGTCCACGCTGCACACCAACGATGCGCCGCAGACCATCGCGCGGCTGATGAACATGGGGATCGCGCCGTACAACATCA
CCAGTTCGGTGACGCTGGTGATCGCGCAGCGTCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCCCGACCCATCTGCCG
CACAATGCGCTGCTGGCCGAGGGTTTCAGCGAGGCGGAAGTGGCCGCCGGCATCCAGCTGTACGAGGCGGTGGGCTGCGA
CGAGTGCACCGAGGGCTACAAGGGCCGCACCGGCATCTATCAGGTGATGCCGATGAACGACGAGATCGCGGCGATCGTGC
TGCAGGGCGGCAACGCGATGGACATCGCCCAGGCCGCGCAGAAGATCGGGGTCAAGGACCTGCGCCAGTCGGCGCTGCTC
AAGGCGCGCGCCGGCATCACCAGCCTGGCGGAGATCAATCGCGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(51-152)


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

54.101

99.135

0.536
  pilB Acinetobacter baylyi ADP1

54.401

98.27

0.535
  pilB Legionella pneumophila strain ERS1305867

52.548

98.443

0.517
  pilB Vibrio cholerae strain A1552

48.873

99.827

0.488
  pilF Neisseria gonorrhoeae MS11

48.592

98.27

0.478
  pilB Vibrio parahaemolyticus RIMD 2210633

46.643

97.924

0.457
  pilB Vibrio campbellii strain DS40M4

45.694

98.443

0.45
  pilF Thermus thermophilus HB27

40.385

89.965

0.363

Multiple sequence alignment