Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RDV79_RS12460 Genome accession   NZ_CP133573
Coordinates   2747730..2749436 (+) Length   568 a.a.
NCBI ID   WP_042049838.1    Uniprot ID   -
Organism   Aeromonas dhakensis strain 202108B1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2742730..2754436
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDV79_RS12435 (RDV79_12435) pdhR 2743911..2744675 (-) 765 WP_005305630.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  RDV79_RS12440 (RDV79_12440) ampD 2744951..2745523 (-) 573 WP_201879874.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  RDV79_RS12445 (RDV79_12445) - 2745647..2746117 (+) 471 WP_043171614.1 TIGR02281 family clan AA aspartic protease -
  RDV79_RS12450 (RDV79_12450) nadC 2746122..2746979 (+) 858 WP_043171615.1 carboxylating nicotinate-nucleotide diphosphorylase -
  RDV79_RS12455 (RDV79_12455) tapA 2747301..2747723 (+) 423 WP_043171616.1 type IVa pilus major pilin TapA -
  RDV79_RS12460 (RDV79_12460) pilB 2747730..2749436 (+) 1707 WP_042049838.1 PilB family type IVa pilus assembly ATPase TapB Machinery gene
  RDV79_RS12465 (RDV79_12465) pilC 2749552..2750793 (+) 1242 WP_201879871.1 type II secretion system F family protein Machinery gene
  RDV79_RS12470 (RDV79_12470) pilD 2750816..2751688 (+) 873 WP_201879868.1 A24 family peptidase Machinery gene
  RDV79_RS12475 (RDV79_12475) coaE 2751708..2752322 (+) 615 WP_201879854.1 dephospho-CoA kinase -
  RDV79_RS12480 (RDV79_12480) zapD 2752360..2753082 (+) 723 WP_026141001.1 cell division protein ZapD -
  RDV79_RS12485 (RDV79_12485) yacG 2753092..2753286 (+) 195 WP_201879851.1 DNA gyrase inhibitor YacG -
  RDV79_RS12490 (RDV79_12490) mutT 2753347..2753760 (-) 414 WP_005305665.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62515.91 Da        Isoelectric Point: 5.4342

>NTDB_id=875011 RDV79_RS12460 WP_042049838.1 2747730..2749436(+) (pilB) [Aeromonas dhakensis strain 202108B1]
MTSSPNSGLALSLAASSLLSESDSQRYLSQAKAQRKPFVTFLIENEILDSKALADFCELEYGVPLLDLAAFDLAEIPQKY
LNQKLIEKHHVLPIYTQGHTLYIAMSDPTNVSALEDFGFSFGLHTEALLVEENKLTAAISKLMESDQDALGMEDIDESEI
SELEVSDEGSRLDESVNTADDDAPIVKYINKIMMDAIKRGASDLHFEPYETKYRIRFRIDGILHEVATPPVNLANRFSAR
LKVMARLDIAERRLPQDGRIKLKMSRNKSMDMRVNTLPTMWGEKIVIRLLDSSAARLNIEQLGFDDRQKAQYLRALSKPQ
GMILVTGPTGSGKTVSLYTGLNILNTTEVNISTAEDPVEINLPGVNQVQVNPKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRMMNMGVPAFNIASSVTLIMAQRLARKLCDHCKAPEVVPEAELLELGFT
QQQLAAGLRLFKPVGCKECSGGYKGRVGIYEILLMSENIAKLIMQGANSMQIAAIAQKEGMRTLRTSGLEKARLGVTSLA
EINRVTTN

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=875011 RDV79_RS12460 WP_042049838.1 2747730..2749436(+) (pilB) [Aeromonas dhakensis strain 202108B1]
ATGACCTCTAGCCCCAATAGCGGCCTGGCGTTAAGCCTGGCCGCCTCTTCCCTGCTCAGTGAGTCAGACTCACAGCGCTA
TCTGAGCCAGGCCAAGGCGCAGCGCAAGCCCTTTGTGACCTTTCTGATCGAGAACGAGATCCTCGACAGCAAGGCGCTGG
CCGACTTCTGCGAGCTGGAATATGGGGTACCTCTGCTGGATCTTGCCGCCTTCGACTTGGCCGAGATCCCGCAGAAGTAC
CTCAATCAGAAGCTGATTGAGAAACACCATGTGCTGCCCATCTACACCCAGGGCCACACCCTCTATATCGCCATGTCCGA
CCCGACCAATGTCTCGGCACTGGAGGATTTTGGTTTCAGCTTCGGGCTGCACACCGAGGCCCTGCTGGTCGAGGAGAACA
AGCTGACCGCCGCCATCAGCAAGCTGATGGAGAGCGATCAGGACGCCCTCGGCATGGAGGACATCGACGAATCCGAGATC
TCCGAGCTGGAGGTGTCTGACGAAGGGTCACGACTCGACGAGAGCGTCAACACGGCGGACGATGACGCCCCCATCGTCAA
ATACATCAACAAGATCATGATGGATGCCATCAAGCGCGGTGCATCCGACCTCCACTTCGAACCCTATGAGACCAAGTACC
GTATTCGCTTTCGGATAGACGGGATCCTGCATGAGGTAGCGACGCCGCCGGTCAATCTGGCCAACCGCTTCTCGGCCCGC
CTCAAGGTGATGGCGCGCCTGGACATCGCCGAACGACGGCTACCCCAGGATGGCCGCATCAAATTGAAAATGTCGCGCAA
CAAGTCGATGGACATGCGGGTCAACACCCTGCCTACCATGTGGGGCGAGAAGATCGTTATCCGTCTGCTCGACTCTTCCG
CTGCGCGCCTCAATATCGAGCAGCTCGGCTTCGACGATCGGCAGAAGGCGCAATATCTGCGTGCGCTTTCGAAGCCTCAG
GGCATGATCCTGGTGACCGGTCCGACCGGCTCGGGCAAGACGGTGTCGCTCTACACCGGCCTGAACATCCTCAATACCAC
AGAGGTGAATATTTCGACCGCCGAAGACCCGGTGGAGATCAACCTGCCAGGAGTCAATCAGGTGCAGGTCAACCCCAAGG
CTGGACTGACCTTCGCCAGTGCCCTGCGCTCCTTCCTGCGCCAGGATCCCGACGTGGTGATGGTTGGTGAAATACGGGAT
CTTGAAACCGCCGAGATCGCCATCAAGGCGGCGCAAACCGGCCACCTGGTGCTCTCCACATTGCACACCAACTCGGCGGC
CGAGACGCTGACCCGGATGATGAACATGGGGGTGCCCGCCTTTAACATCGCCTCCTCGGTAACCCTGATCATGGCTCAGC
GACTGGCACGCAAGCTGTGCGACCACTGCAAGGCCCCCGAGGTGGTGCCGGAAGCTGAACTGCTGGAGTTGGGGTTCACC
CAACAGCAACTGGCCGCAGGCTTGCGGCTGTTCAAGCCGGTTGGTTGCAAGGAGTGTTCGGGCGGCTACAAGGGGCGGGT
CGGCATCTACGAGATCCTGTTGATGTCAGAAAATATTGCAAAATTGATCATGCAGGGAGCCAACTCCATGCAGATTGCGG
CCATCGCCCAGAAGGAGGGCATGCGCACCTTGCGGACCTCCGGTCTTGAGAAGGCCCGACTGGGGGTGACCAGCCTGGCC
GAGATAAACCGGGTAACAACCAACTGA

Domains

Predicted by InterproScan.

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

(42-146)

Type II/IV secretion system protein (T2SSE)

(191-458)


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

55.263

100

0.555
  pilB Acinetobacter baumannii D1279779

54.833

100

0.549
  pilB Legionella pneumophila strain ERS1305867

54.69

99.472

0.544
  pilB Vibrio cholerae strain A1552

53.982

99.472

0.537
  pilB Vibrio campbellii strain DS40M4

51.045

100

0.516
  pilB Vibrio parahaemolyticus RIMD 2210633

50.89

98.944

0.504
  pilF Neisseria gonorrhoeae MS11

46.454

99.296

0.461
  pilB/pilB1 Synechocystis sp. PCC 6803

38.698

97.359

0.377
  pilF Thermus thermophilus HB27

40.53

92.958

0.377