Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SJY35_RS05355 Genome accession   NZ_CP139001
Coordinates   1169846..1171525 (-) Length   559 a.a.
NCBI ID   WP_396588795.1    Uniprot ID   -
Organism   Bermanella sp. R86510     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1164846..1176525
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SJY35_RS05325 argJ 1165218..1166435 (+) 1218 WP_396588789.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  SJY35_RS05330 - 1166536..1166838 (+) 303 WP_396588790.1 NUDIX domain-containing protein -
  SJY35_RS05335 yacG 1166848..1167048 (-) 201 WP_396588791.1 DNA gyrase inhibitor YacG -
  SJY35_RS05340 coaE 1167045..1167662 (-) 618 WP_396588792.1 dephospho-CoA kinase -
  SJY35_RS05345 - 1167663..1168526 (-) 864 WP_396588793.1 prepilin peptidase -
  SJY35_RS05350 pilC 1168606..1169832 (-) 1227 WP_396588794.1 type II secretion system F family protein Machinery gene
  SJY35_RS05355 pilB 1169846..1171525 (-) 1680 WP_396588795.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SJY35_RS05360 - 1171656..1172111 (-) 456 WP_396588796.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  SJY35_RS05365 nadC 1172465..1173307 (-) 843 WP_396588797.1 carboxylating nicotinate-nucleotide diphosphorylase -
  SJY35_RS05370 ampD 1173458..1174009 (+) 552 WP_396588798.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  SJY35_RS05375 ampE 1174021..1174863 (+) 843 WP_396588799.1 regulatory signaling modulator protein AmpE -
  SJY35_RS05380 - 1174860..1175804 (-) 945 WP_396588800.1 ROK family protein -
  SJY35_RS05385 - 1175791..1176159 (-) 369 WP_396588801.1 PilZ domain-containing protein -

Sequence

Protein


Download         Length: 559 a.a.        Molecular weight: 61196.40 Da        Isoelectric Point: 5.2319

>NTDB_id=906688 SJY35_RS05355 WP_396588795.1 1169846..1171525(-) (pilB) [Bermanella sp. R86510]
MSKVTGIARQFVEHSLLSEQQAVEITKDASKERRSFIIQALLSGSCKSKDVALLASNEFGLPFLDLSAMDPEHFAADAIS
DDLLEKHKILPIFKRGNRLHIAQADPSDIAALDDIKFATGMTVDATVVEYDKLNLILEKLLAGNTTFDDLGEDLDLEEHE
PEKKPAEEEGTGDDAPIVRFINKMLLDAIKMGSSDLHFEPYEKRYRIRFRTDGVLQEMASPPINLAGKIAARLKVMSKMD
ISERRVPQDGRIKMKISKSKAIDFRVNTLPTLWGEKIVLRILDPSSAQMGIDALGYEPEQKELYMNALAQPQGMILVTGP
TGSGKTVSLYTGLNILNQEGTNISTAEDPVEINLEGINQVNVNAKVGLDFAEALRSFLRQDPDIVMVGEIRDLDTASIAI
KAAQTGHLVLSTLHTNSAPETLTRLMNMGVPSFNIATSVSLIIAQRLGRRLCKQCKKPADIPKDVLLKAGITEAMLKDAT
IYQPVGCEACSGGYKGRVGIYEVVKITNAISRIIMENGNAMQIADAAQKEGFNNLRTSALMKVCQGVTSLEEANRVTAE

Nucleotide


Download         Length: 1680 bp        

>NTDB_id=906688 SJY35_RS05355 WP_396588795.1 1169846..1171525(-) (pilB) [Bermanella sp. R86510]
ATGTCTAAGGTTACCGGCATTGCCCGACAGTTTGTCGAGCATAGTTTATTAAGCGAACAGCAAGCAGTGGAAATCACTAA
GGATGCCAGCAAAGAGCGTCGGTCCTTTATTATTCAAGCGCTGTTATCGGGCAGCTGTAAATCAAAAGATGTTGCCTTAT
TGGCCAGTAATGAATTTGGCTTACCCTTTTTAGATCTATCCGCCATGGATCCAGAGCATTTTGCAGCGGATGCAATAAGC
GATGATTTACTCGAAAAACACAAAATACTGCCCATATTTAAGCGCGGTAACCGCTTACATATTGCTCAAGCTGACCCTTC
GGATATCGCTGCCCTTGATGATATAAAGTTTGCAACGGGCATGACCGTTGACGCCACTGTGGTGGAATACGACAAGCTAA
ACCTTATTTTAGAAAAGCTATTGGCAGGTAATACTACTTTTGATGATCTTGGGGAAGATCTCGACTTAGAAGAACACGAA
CCAGAGAAGAAACCCGCTGAAGAAGAAGGCACTGGAGATGACGCTCCAATTGTCCGATTCATTAATAAAATGCTGCTAGA
TGCCATAAAAATGGGCAGTTCCGACCTTCACTTTGAGCCTTATGAAAAACGCTACCGTATTCGCTTTCGCACTGATGGTG
TCTTGCAAGAAATGGCCTCTCCGCCTATTAACCTTGCAGGTAAAATTGCCGCACGTTTAAAAGTTATGTCAAAAATGGAT
ATCTCCGAACGTCGCGTGCCGCAAGATGGGCGTATTAAAATGAAGATATCTAAGTCTAAGGCAATCGACTTTCGAGTGAA
TACTCTGCCCACACTTTGGGGAGAAAAAATTGTATTGCGGATTTTAGACCCATCAAGTGCACAAATGGGCATTGATGCCC
TCGGGTATGAACCCGAGCAAAAAGAACTCTATATGAATGCCCTTGCTCAACCACAAGGCATGATTCTAGTTACCGGACCG
ACTGGTTCAGGGAAAACAGTTTCGCTTTATACAGGCTTGAACATTCTTAACCAAGAAGGTACTAATATATCGACCGCAGA
AGACCCGGTAGAGATTAACCTTGAAGGGATAAACCAAGTTAACGTGAATGCCAAGGTAGGCCTTGATTTCGCTGAAGCGT
TACGTTCGTTCTTGCGCCAAGACCCTGATATCGTCATGGTAGGTGAGATTCGAGACCTAGATACCGCCAGTATTGCAATA
AAAGCTGCACAAACCGGCCACTTAGTATTATCGACTTTGCATACCAATAGCGCCCCTGAAACCCTAACGCGTTTAATGAA
TATGGGGGTGCCCTCGTTTAATATTGCCACCTCGGTCAGTCTTATTATCGCTCAACGCTTAGGGCGTCGACTATGCAAAC
AATGTAAAAAACCGGCAGACATACCAAAAGACGTACTGCTTAAAGCAGGTATAACCGAAGCCATGCTGAAAGATGCAACC
ATATACCAACCTGTAGGCTGTGAAGCCTGTTCTGGGGGATATAAAGGCCGTGTTGGTATTTATGAAGTAGTTAAAATTAC
CAATGCCATCTCTCGTATTATAATGGAGAACGGTAATGCCATGCAGATTGCAGACGCAGCCCAAAAAGAAGGCTTTAATA
ACTTACGGACATCGGCACTTATGAAAGTTTGTCAGGGTGTTACTAGTTTAGAAGAAGCTAACCGCGTAACCGCTGAATAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(183-450)

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

(12-140)


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

62.367

100

0.631
  pilB Acinetobacter baylyi ADP1

60.498

100

0.608
  pilB Legionella pneumophila strain ERS1305867

51.943

100

0.526
  pilB Vibrio cholerae strain A1552

52.008

93.56

0.487
  pilF Neisseria gonorrhoeae MS11

48.913

98.748

0.483
  pilB Vibrio parahaemolyticus RIMD 2210633

50.568

94.454

0.478
  pilB Vibrio campbellii strain DS40M4

50.282

94.991

0.478
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.884

92.844

0.37
  pilB/pilB1 Synechocystis sp. PCC 6803

39.038

93.023

0.363