Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AAG688_RS14805 Genome accession   NZ_CP157201
Coordinates   3199700..3201430 (+) Length   576 a.a.
NCBI ID   WP_411832954.1    Uniprot ID   -
Organism   Pseudoxanthomonas mexicana strain SDU_PSEU2     
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 3199799..3211487 3199700..3201430 flank -1631


Gene organization within MGE regions


Location: 3199700..3211487
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AAG688_RS14805 pilB 3199700..3201430 (+) 1731 WP_411832954.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AAG688_RS14810 pilC 3201771..3203045 (+) 1275 WP_411832955.1 type II secretion system F family protein Machinery gene
  AAG688_RS14815 pilD 3203052..3203918 (+) 867 WP_411832956.1 prepilin peptidase Machinery gene
  AAG688_RS14820 - 3203974..3204231 (+) 258 WP_411832957.1 type II toxin-antitoxin system Phd/YefM family antitoxin -
  AAG688_RS14825 - 3204219..3204539 (+) 321 WP_411832958.1 type II toxin-antitoxin system RelE/ParE family toxin -
  AAG688_RS14830 coaE 3204575..3205255 (+) 681 WP_411832959.1 dephospho-CoA kinase -
  AAG688_RS14835 - 3205471..3206442 (-) 972 WP_411832960.1 Nudix family hydrolase -
  AAG688_RS14840 secA 3207139..3209892 (-) 2754 WP_411832961.1 preprotein translocase subunit SecA -
  AAG688_RS14845 - 3210049..3211002 (-) 954 WP_411832962.1 peptidoglycan DD-metalloendopeptidase family protein -
  AAG688_RS14850 - 3211011..3211487 (+) 477 WP_411832963.1 DciA family protein -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62585.88 Da        Isoelectric Point: 6.4340

>NTDB_id=1004583 AAG688_RS14805 WP_411832954.1 3199700..3201430(+) (pilB) [Pseudoxanthomonas mexicana strain SDU_PSEU2]
MNVSVSANLVGITGIARRLVLDGALDDASARVAMDGAAAAKVPLAQWVAEKKLVTPAQLAAANAIEFGMPLLDVAAFDSS
HSAIKLVSDELLQKHQVLPLFKRGTRLFVGVSDPTKSHALDEIKFHTNLVVEPILVDEDSLRRAIDQWANASSNLGSTFG
DGDDEGLENLEIGTDDDAGNESGVDAKGDDTPVVKFVNKVLVDAIKRGASDIHFEPYETDYRVRLRIDGILKQVAKAPVK
LRDRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPDQQKLF
EEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDPDV
IMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTVARLMNMGIAPYNITSSVTLIIAQRLARRLCGKCKRPVDLPQH
TLLAEGFTEDEIRSGFKVYEPVGCDECTDGYKGRTGIYQVMPMSDAIAEIVLQGGNAMQIAEVARKAGIRDLRQSALLKV
KNGITSLAEINRVTKD

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=1004583 AAG688_RS14805 WP_411832954.1 3199700..3201430(+) (pilB) [Pseudoxanthomonas mexicana strain SDU_PSEU2]
ATGAACGTTTCAGTATCTGCGAATCTTGTGGGCATAACGGGAATCGCAAGACGACTCGTCCTCGATGGCGCATTGGATGA
CGCCAGCGCCCGCGTGGCCATGGACGGTGCCGCGGCAGCCAAAGTGCCCTTGGCCCAATGGGTCGCCGAGAAGAAACTTG
TTACCCCTGCTCAACTGGCGGCAGCCAATGCCATCGAATTTGGCATGCCGCTGTTGGATGTGGCGGCCTTTGACTCTTCA
CATAGTGCAATCAAGCTTGTCAGTGATGAGTTGCTGCAGAAGCATCAAGTCTTGCCGTTGTTCAAGCGCGGCACGCGTTT
GTTTGTTGGCGTATCAGATCCCACCAAAAGCCACGCACTGGACGAGATCAAGTTCCATACCAACCTGGTGGTCGAACCCA
TCCTGGTGGACGAGGATTCGTTGCGTCGCGCAATCGACCAATGGGCCAACGCTTCTTCCAACCTCGGCAGCACCTTCGGC
GATGGCGATGACGAAGGACTGGAAAACCTGGAGATCGGCACCGACGACGATGCCGGCAACGAATCCGGCGTCGACGCCAA
GGGTGACGACACGCCGGTAGTCAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCAAGCGCGGCGCCTCGGATATCCACT
TCGAACCCTACGAGACCGATTACCGCGTGCGCCTGCGCATCGACGGTATCCTGAAGCAGGTGGCCAAGGCGCCGGTCAAG
CTCAGGGATCGCATCGCCGCACGCCTGAAGGTGATGTCGCAGTTGGATATCGCCGAGAAGCGCGTACCGCAGGACGGTCG
CATCAAGCTGAACCTGTCCAAGACCAAGCAGATCGACTTCCGCGTCAGCACGCTGCCGACGCTGTTCGGCGAGAAGATCG
TGCTGCGTATCCTGGACGGCAGCGCGGCCAAGCTGGGCATAGACAAGCTGGGCTACGAACCAGACCAGCAAAAATTGTTC
GAAGAGGCCATCCACAAGCCCTACGGCATGGTACTGGTCACCGGCCCCACCGGTTCGGGCAAGACGGTGTCGCTGTATAC
CGCGCTGGGCATCCTCAACGACGAGACCCGCAACATCTCCACCGCCGAGGATCCGGTGGAAATCCGCCTGCCCGGCGTCA
ACCAGGTGCAGCAGAACGTCAAGCGCGGCATGACCTTCGCCGCGGCGCTGCGCAGCTTCCTGCGCCAGGATCCGGACGTC
ATCATGGTCGGCGAAATCCGCGATCTGGAAACCGCCGAAATCGCCATCAAGGCGGCGCAGACCGGCCACATGGTGCTGTC
CACCCTGCATACCAACGACGCGCCGCAGACGGTGGCGCGCCTGATGAACATGGGTATTGCGCCCTACAACATCACCAGTT
CGGTGACGCTGATCATCGCCCAGCGCTTGGCGCGGCGACTGTGCGGCAAGTGCAAGCGACCGGTGGACCTGCCCCAGCAC
ACGCTGCTGGCCGAGGGCTTCACAGAGGACGAGATCCGGTCCGGCTTCAAGGTCTACGAGCCGGTCGGCTGCGACGAGTG
CACCGATGGCTACAAGGGCCGCACCGGTATCTACCAGGTGATGCCGATGAGCGATGCCATCGCCGAGATCGTCCTGCAGG
GCGGCAATGCCATGCAGATTGCCGAGGTGGCCCGGAAGGCCGGCATCCGCGATCTGCGCCAGTCGGCGTTGCTGAAGGTC
AAGAATGGCATCACCAGCTTGGCCGAGATCAACCGGGTGACGAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(199-466)

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

(50-150)


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

55.379

98.438

0.545
  pilB Acinetobacter baylyi ADP1

54.497

98.438

0.536
  pilB Legionella pneumophila strain ERS1305867

52.827

98.264

0.519
  pilB Vibrio cholerae strain A1552

54.28

89.236

0.484
  pilF Neisseria gonorrhoeae MS11

48.94

98.264

0.481
  pilB Vibrio campbellii strain DS40M4

46.503

99.306

0.462
  pilB Vibrio parahaemolyticus RIMD 2210633

47.92

96.007

0.46

Multiple sequence alignment