Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   WHO69_RS12080 Genome accession   NZ_CP148108
Coordinates   2655823..2657508 (+) Length   561 a.a.
NCBI ID   WP_020333948.1    Uniprot ID   -
Organism   Vibrio natriegens isolate FELIX_MS472     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2650823..2662508
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WHO69_RS12060 pdhR 2652395..2653162 (-) 768 WP_014232947.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  WHO69_RS12065 ampD 2653572..2654117 (-) 546 WP_020333945.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  WHO69_RS12070 nadC 2654210..2655097 (+) 888 WP_020333946.1 carboxylating nicotinate-nucleotide diphosphorylase -
  WHO69_RS12075 pilA 2655364..2655822 (+) 459 WP_020333947.1 pilin Machinery gene
  WHO69_RS12080 pilB 2655823..2657508 (+) 1686 WP_020333948.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WHO69_RS12085 pilC 2657539..2658762 (+) 1224 WP_020333949.1 type II secretion system F family protein Machinery gene
  WHO69_RS12090 pilD 2658830..2659699 (+) 870 WP_020333950.1 A24 family peptidase Machinery gene
  WHO69_RS12095 coaE 2659700..2660314 (+) 615 WP_020333951.1 dephospho-CoA kinase -
  WHO69_RS12100 zapD 2660341..2661081 (+) 741 WP_020333952.1 cell division protein ZapD -
  WHO69_RS12105 yacG 2661155..2661349 (+) 195 WP_014232956.1 DNA gyrase inhibitor YacG -
  WHO69_RS12110 rplS 2661674..2662027 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62140.90 Da        Isoelectric Point: 5.6544

>NTDB_id=950685 WHO69_RS12080 WP_020333948.1 2655823..2657508(+) (pilB) [Vibrio natriegens isolate FELIX_MS472]
MLFNLIGTLRNANLIIQHQEESLIEQVNASGISIPEALVNSGIFTSRELATHLSSIFGLPYEPLSNYDYSALCQKLGLRE
LITSHHALPLERTPSTLTLAIADPTNQQAEDDFRFATGLQIDLVITDFSELDAAIRRLYGRALGQERSGLKEINQEELAN
LVDVGADEIDNIEDLSQDQSPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRMPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSDQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKAAQTGHLVLSTLHTNSAAETVIRLTNMGVESYNLASSLSLVIAQRLARKLCSHCKQPQEVTAALQHIGIQATDQ
IYQANPNGCNHCTHGYSGRTGIYEVMRFDETLSEALIKGASVNQLEKLAIRNGMSTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=950685 WHO69_RS12080 WP_020333948.1 2655823..2657508(+) (pilB) [Vibrio natriegens isolate FELIX_MS472]
ATGTTATTCAACTTAATTGGGACTCTTCGTAATGCTAATCTGATTATCCAGCACCAAGAAGAGTCGTTAATAGAGCAAGT
CAACGCTTCTGGTATTTCGATACCGGAAGCGTTAGTCAATTCAGGCATATTTACCTCCAGAGAACTCGCCACTCATCTAA
GTTCAATCTTTGGTTTACCCTACGAACCGTTATCTAATTATGATTACAGCGCCCTGTGCCAAAAATTGGGGCTGCGCGAG
CTGATCACGAGTCATCATGCCCTGCCACTGGAGCGAACGCCTTCGACGTTAACTCTCGCTATTGCCGACCCAACTAACCA
ACAAGCAGAAGATGATTTTCGCTTTGCAACCGGATTGCAAATTGATCTCGTCATTACGGATTTTTCGGAGCTTGATGCTG
CGATTCGCCGTTTGTACGGTCGCGCGTTAGGTCAGGAGAGATCCGGCTTAAAAGAGATCAACCAAGAAGAGTTGGCTAAT
TTGGTTGACGTCGGTGCTGATGAAATCGATAACATCGAAGACTTAAGTCAGGACCAATCACCGGTTAGTCGCTATATCAA
CCAGATTTTATTGGATGCTGTACGTAAAGGGGCATCCGATATCCACTTTGAACCTTATGAAAAAATGTATCGGGTTCGGC
TGCGTTGTGACGGCATTCTAATTGAGACTCAACAGCCGCCAAGCCATTTAAGTCGACGCTTATCGGCTCGAATCAAAATT
CTGTCCAAGCTTGATATTGCTGAAAGGCGTATGCCGCAAGACGGTCGAATAAAGTTAAAGCTTAATCAAGACACTGCGAT
TGATATGCGAGTGTCCACCTTACCCACTCTATTCGGAGAAAAAATCGTATTGCGACTGCTCGACAGCAGCTCCGCTTCTC
TGGATATCGATAAACTAGGCTACAGTGACCAGCAAAAGCAGCTGTACTTAGATGCTCTGCGTCGTCCACAAGGCATGATT
TTAATGACCGGCCCAACCGGCAGCGGCAAAACCGTCTCGTTGTACACAGGGCTGAGCATACTCAATAAACCAGAGATCAA
TATTTCTACGGCTGAAGACCCGGTGGAAATCAACCTCTCCGGAATTAATCAGGTTCAGGTTCAACCCAAGATAGGCTTTG
GTTTCGCCGAGGCACTGCGCTCTTTCCTGCGTCAAGATCCTGATGTGGTCATGGTGGGAGAAATCCGCGATTTGGACACA
GCAGAAATCGCGATTAAGGCCGCACAAACCGGACACTTAGTCTTGTCGACACTCCACACAAATTCAGCCGCTGAAACCGT
TATCCGCCTAACGAATATGGGCGTTGAAAGCTACAACCTCGCCTCTTCGCTCAGCCTTGTTATTGCCCAGCGCTTAGCCC
GTAAACTTTGCTCGCACTGTAAGCAGCCTCAAGAGGTTACCGCCGCATTACAACATATTGGCATTCAAGCAACTGACCAG
ATTTATCAAGCTAACCCAAATGGCTGTAACCACTGTACACACGGCTATTCGGGAAGAACTGGCATCTATGAGGTGATGCG
TTTCGATGAAACCCTATCCGAAGCACTGATTAAAGGTGCCTCGGTAAATCAACTCGAAAAACTCGCCATCCGTAACGGGA
TGAGCACACTACAAATGTCAGGTATTGAAAAGCTTAAGCAAGGCGTCACAAGCTTTAGCGAACTGCAGCGCGTGCTCTAC
TTTTAA

Domains

Predicted by InterproScan.

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

(38-142)

Type II/IV secretion system protein (T2SSE)

(188-455)


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 Vibrio parahaemolyticus RIMD 2210633

86.988

100

0.87
  pilB Vibrio campbellii strain DS40M4

84.492

100

0.845
  pilB Vibrio cholerae strain A1552

72.42

100

0.725
  pilB Acinetobacter baumannii D1279779

51.923

92.692

0.481
  pilB Legionella pneumophila strain ERS1305867

48.799

96.435

0.471
  pilB Acinetobacter baylyi ADP1

50.484

92.157

0.465
  pilF Neisseria gonorrhoeae MS11

43.617

100

0.439
  pilB/pilB1 Synechocystis sp. PCC 6803

38.023

100

0.405
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.603

96.97

0.374
  pilF Thermus thermophilus HB27

37.112

97.504

0.362