Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   E5678_RS12030 Genome accession   NZ_CP039252
Coordinates   2675340..2677079 (+) Length   579 a.a.
NCBI ID   WP_136178749.1    Uniprot ID   -
Organism   Hydrogenophaga sp. PAMC20947     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2670340..2682079
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E5678_RS12005 (E5678_12005) proB 2670851..2671984 (-) 1134 WP_136180748.1 glutamate 5-kinase -
  E5678_RS12010 (E5678_12010) cgtA 2672057..2673133 (-) 1077 WP_136178747.1 Obg family GTPase CgtA -
  E5678_RS12015 (E5678_12015) rpmA 2673263..2673520 (-) 258 WP_136178748.1 50S ribosomal protein L27 -
  E5678_RS12020 (E5678_12020) rplU 2673536..2673847 (-) 312 WP_066092426.1 50S ribosomal protein L21 -
  E5678_RS12025 (E5678_12025) - 2674122..2675051 (+) 930 WP_136180749.1 polyprenyl synthetase family protein -
  E5678_RS12030 (E5678_12030) pilB 2675340..2677079 (+) 1740 WP_136178749.1 type IV-A pilus assembly ATPase PilB Machinery gene
  E5678_RS12035 (E5678_12035) pilC 2677111..2678328 (+) 1218 WP_136178750.1 type II secretion system F family protein Machinery gene
  E5678_RS12040 (E5678_12040) - 2678328..2679185 (+) 858 WP_136178751.1 A24 family peptidase -
  E5678_RS12045 (E5678_12045) coaE 2679257..2679790 (+) 534 WP_247597027.1 dephospho-CoA kinase -
  E5678_RS12050 (E5678_12050) zapD 2679829..2680584 (+) 756 WP_136178753.1 cell division protein ZapD -
  E5678_RS12055 (E5678_12055) - 2680591..2680794 (+) 204 WP_136178754.1 DNA gyrase inhibitor YacG -
  E5678_RS12060 (E5678_12060) - 2680811..2681245 (-) 435 WP_247597028.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 579 a.a.        Molecular weight: 62787.22 Da        Isoelectric Point: 5.4649

>NTDB_id=357632 E5678_RS12030 WP_136178749.1 2675340..2677079(+) (pilB) [Hydrogenophaga sp. PAMC20947]
MASADTIIQDSPSLALPGLGRALVSAGKLGQKAAEDLYKKAQSARTSFIAELTGSGAVSASDLAHTMSIAFAAPLLDLDA
IDQERLPKNLLDSKICTDYRIVVLSKRNNRLLVATADPSDQQAAEKIKFSTQLGVDWVIAEFDKLSKLVDALSTTANEAM
DNIIGGDFEFDEASTDTVEVETNEKAVSAEVDDAPVVKFLHKMLLDAFNMRASDLHFEPYEHTYRVRFRVDGELREIASP
PIAIKDKLASRIKVISRMDISEKRIPQDGRMKLKVGPDRVIDFRVSSLPTLFGEKIVIRILDPSSAKVGIDALGYEPEEK
ERLMEAISRPYGMVLVTGPTGSGKTVSLYTCLNILNKPGINISTAEDPSEINLPGVNQVNVNEKAGLTFAAALKAFLRQD
PDVIMVGEIRDLETADISIKAAQTGHMVLSTLHTNDAPTTLTRMMNMGIPVFNIASSVILITAQRLARRLCATCKVTLDV
PRKALLDAGYTAEALDGTWTPYKPVGCSACNNGYKGRVGIYQVMPISEEIQRIILKGGSALDIAQQAGKEGVRTLRQSGL
LKVKLGLTSLEEVLSVTNE

Nucleotide


Download         Length: 1740 bp        

>NTDB_id=357632 E5678_RS12030 WP_136178749.1 2675340..2677079(+) (pilB) [Hydrogenophaga sp. PAMC20947]
ATGGCGTCTGCTGACACGATCATCCAAGACTCTCCCTCTCTGGCCTTGCCCGGGCTTGGGCGGGCGCTTGTCTCCGCTGG
AAAACTGGGGCAAAAGGCCGCAGAGGACCTGTACAAAAAAGCGCAAAGCGCACGCACAAGCTTCATTGCCGAGCTGACTG
GCTCCGGAGCCGTGTCGGCATCGGATCTCGCGCACACGATGTCCATCGCATTTGCAGCGCCACTTCTTGATCTGGATGCA
ATCGATCAAGAGCGGCTGCCCAAAAACCTGCTCGACTCCAAGATTTGCACGGACTACCGCATTGTGGTGCTCAGCAAGCG
CAACAACCGCTTGCTGGTGGCAACCGCCGACCCATCTGACCAGCAAGCCGCAGAAAAGATCAAGTTTTCGACCCAACTGG
GTGTCGATTGGGTGATTGCCGAGTTTGACAAGCTCAGCAAGCTGGTTGATGCGCTGTCCACCACGGCCAACGAGGCCATG
GACAACATCATCGGGGGCGATTTCGAGTTTGACGAAGCGTCCACCGATACTGTGGAAGTTGAAACGAACGAAAAAGCTGT
TTCGGCAGAAGTTGACGATGCCCCCGTCGTCAAGTTCCTGCACAAAATGCTTCTGGACGCTTTCAACATGCGGGCATCTG
ACTTGCACTTTGAGCCCTACGAGCACACCTACCGGGTGCGCTTCCGGGTAGACGGGGAGTTGCGGGAAATCGCCTCCCCC
CCCATCGCGATCAAAGACAAACTAGCGTCCCGGATCAAAGTCATCTCCCGCATGGACATTTCGGAGAAGCGGATCCCCCA
AGACGGGCGGATGAAGCTCAAAGTGGGTCCCGATCGGGTGATCGATTTCCGGGTGAGCTCGTTGCCCACCCTCTTCGGCG
AGAAGATCGTCATCCGTATTCTCGACCCCAGCAGCGCCAAGGTGGGTATCGATGCGCTGGGTTATGAACCCGAAGAAAAA
GAGCGCCTGATGGAGGCGATTTCCCGTCCCTACGGGATGGTTCTGGTAACCGGCCCAACAGGTTCAGGCAAGACCGTGTC
TTTGTACACCTGCCTGAACATACTCAACAAGCCCGGCATCAACATCTCGACGGCTGAAGATCCGTCGGAGATCAACTTGC
CAGGCGTCAACCAGGTCAACGTGAATGAGAAGGCTGGCTTGACGTTCGCCGCCGCGCTCAAGGCCTTCTTGCGCCAGGAT
CCAGACGTCATCATGGTGGGTGAGATTCGCGACCTCGAAACTGCGGACATCTCCATCAAAGCCGCACAGACGGGTCACAT
GGTGCTCTCTACGCTGCACACCAACGATGCGCCTACGACGCTCACGCGCATGATGAACATGGGAATACCCGTTTTCAACA
TCGCTTCCAGCGTCATCCTGATCACGGCACAGCGCTTGGCCAGGCGCCTGTGCGCCACCTGCAAAGTGACTTTGGACGTC
CCGCGGAAAGCACTGCTGGACGCCGGATACACGGCGGAGGCGCTGGATGGCACCTGGACGCCCTACAAACCGGTGGGTTG
CAGCGCTTGCAACAACGGCTACAAGGGCCGGGTGGGTATCTACCAGGTCATGCCCATTTCGGAAGAAATACAGCGCATCA
TTCTCAAGGGTGGCAGCGCCCTCGACATCGCACAACAAGCCGGCAAAGAGGGCGTCAGAACCCTGCGCCAATCTGGACTG
CTCAAGGTCAAGCTGGGCCTCACTTCTCTTGAAGAAGTGCTCAGCGTGACCAACGAATAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(202-469)

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

(54-152)


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

54.625

98.964

0.541
  pilB Acinetobacter baylyi ADP1

53.873

98.1

0.528
  pilF Neisseria gonorrhoeae MS11

52.212

97.582

0.509
  pilB Legionella pneumophila strain ERS1305867

50.53

97.755

0.494
  pilB Vibrio parahaemolyticus RIMD 2210633

45.633

96.891

0.442
  pilB Vibrio campbellii strain DS40M4

44.133

98.618

0.435
  pilB Vibrio cholerae strain A1552

47.784

89.637

0.428
  pilF Thermus thermophilus HB27

37.566

97.927

0.368
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.139

92.228

0.361

Multiple sequence alignment