Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LPH35_RS07695 Genome accession   NZ_CP087711
Coordinates   1687131..1688639 (-) Length   502 a.a.
NCBI ID   WP_230433053.1    Uniprot ID   -
Organism   Plesiomonas shigelloides strain 7A     
Function   type IV pilus biogenesis and function (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 1685026..1693182 1687131..1688639 within 0


Gene organization within MGE regions


Location: 1685026..1693182
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPH35_RS07685 - 1685026..1685730 (-) 705 WP_230433051.1 pilin glycosylation ligase domain-containing protein -
  LPH35_RS07690 - 1685894..1687129 (-) 1236 WP_230433052.1 type II secretion system F family protein -
  LPH35_RS07695 pilB 1687131..1688639 (-) 1509 WP_230433053.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LPH35_RS07700 pilA 1688690..1689109 (-) 420 WP_230433054.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  LPH35_RS07705 nadC 1689881..1690807 (-) 927 WP_230433055.1 carboxylating nicotinate-nucleotide diphosphorylase -
  LPH35_RS07710 ampD 1691242..1691847 (+) 606 WP_230433056.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  LPH35_RS07715 ampE 1692048..1692890 (+) 843 WP_116545976.1 beta-lactamase regulator AmpE -

Sequence

Protein


Download         Length: 502 a.a.        Molecular weight: 55536.26 Da        Isoelectric Point: 5.5664

>NTDB_id=631155 LPH35_RS07695 WP_230433053.1 1687131..1688639(-) (pilB) [Plesiomonas shigelloides strain 7A]
MKKIDIDNLAYSHLRPLIQEYKAIPLFEDDFSLYLSINNTYDYKAADAFRFATGKNIELVQADKKELYARIEELTGQKVD
DIVTAADSETLGELDELDGDSRSTDTAEVADEQDEAPIVRFINQMLSRAVRVKASDIHFEPYEKTYRVRFRIDGVLQEIT
APPQKLAQRLAARLKIMSRLDIAERRVPQDGRIKLKLSEGTNIDLRVSTLPTLFGEKVVLRILDSSAARLDIEQLGFTAR
DQQLYINALTRPQGLILVTGPTGSGKTVTLYTGLSRLNTPERNISTAEDPVEINLSGVNQTQINTRAGLTFASALRAFLR
QDPDVVMVGEIRDLETAEIAVKAAQTGHLVLSTLHTNSAAETLTRLSNMGVPAYNIASSVNLIIAQRLARRLCPHCREAI
SLSYAEQQAREFTPLQPDGITIYRAHKEGCDHCSSGYKGRTGIYEMMPMSGQLTDAILRGAHAPELTAIACQQGMLTLRQ
AGCAKVVEGITSLEEIERVTGV

Nucleotide


Download         Length: 1509 bp        

>NTDB_id=631155 LPH35_RS07695 WP_230433053.1 1687131..1688639(-) (pilB) [Plesiomonas shigelloides strain 7A]
ATGAAAAAAATAGATATTGATAACTTAGCGTACTCTCACTTACGACCTCTAATCCAAGAATATAAAGCCATCCCATTATT
TGAGGATGATTTTTCTTTATATCTATCCATCAATAATACTTATGACTACAAAGCAGCCGATGCCTTTCGCTTCGCCACTG
GCAAAAATATCGAGCTGGTGCAAGCGGATAAAAAAGAACTGTATGCCCGCATTGAAGAGCTGACCGGCCAAAAGGTCGAC
GATATTGTCACCGCCGCCGACAGCGAAACCTTGGGCGAGCTTGATGAGCTCGACGGTGATAGTCGCAGCACCGACACCGC
CGAAGTGGCCGATGAGCAAGATGAAGCGCCCATTGTGCGTTTTATCAACCAAATGCTCAGCCGTGCCGTACGGGTGAAAG
CCTCCGACATTCACTTTGAACCGTACGAGAAAACCTATCGGGTACGTTTTCGTATTGATGGCGTGTTACAAGAAATCACC
GCGCCGCCACAAAAACTGGCCCAGCGCCTCGCCGCTCGCCTAAAAATTATGAGCCGGCTGGATATCGCCGAGCGCCGCGT
GCCACAAGATGGGCGTATCAAGCTCAAACTGAGTGAAGGCACCAACATTGATTTACGCGTATCCACCTTGCCCACTCTGT
TTGGCGAAAAGGTGGTACTGCGAATTCTCGACTCCTCCGCTGCCCGTTTAGATATCGAGCAACTCGGCTTCACCGCCCGT
GACCAACAGCTGTACATCAATGCCCTAACACGCCCGCAGGGGTTGATTCTGGTTACTGGCCCAACCGGAAGCGGTAAAAC
CGTCACCTTGTATACCGGCTTATCACGCCTGAATACCCCTGAGCGCAATATCTCAACAGCGGAAGATCCGGTGGAAATCA
ACTTAAGCGGTGTCAATCAAACCCAGATTAACACCCGCGCCGGCCTGACTTTCGCCAGCGCACTGCGCGCCTTTTTGCGC
CAAGACCCTGACGTGGTAATGGTGGGGGAGATTCGAGATCTGGAAACCGCCGAAATTGCGGTAAAAGCGGCACAAACCGG
CCACTTGGTACTCTCCACGCTGCACACCAACTCAGCCGCCGAAACCTTAACCCGCCTATCGAATATGGGCGTACCGGCTT
ACAACATTGCCTCTTCAGTGAATCTGATCATTGCTCAGCGGTTGGCGCGGCGTTTATGCCCGCATTGCCGTGAAGCCATC
TCCTTGAGCTATGCCGAACAACAAGCCCGCGAGTTCACCCCGCTACAACCGGATGGGATTACCATTTACCGCGCCCACAA
AGAAGGCTGCGATCACTGCAGCAGTGGCTACAAAGGGCGTACCGGTATTTACGAAATGATGCCGATGTCTGGCCAGCTGA
CTGATGCCATTTTGCGCGGCGCTCACGCCCCAGAGCTCACCGCTATTGCCTGCCAACAGGGCATGCTGACCTTGCGTCAA
GCCGGTTGCGCCAAAGTGGTTGAGGGGATCACCTCATTGGAAGAAATCGAACGCGTAACAGGAGTGTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(124-391)


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 campbellii strain DS40M4

57.172

98.606

0.564
  pilB Vibrio cholerae strain A1552

56.262

100

0.564
  pilB Vibrio parahaemolyticus RIMD 2210633

56.97

98.606

0.562
  pilB Acinetobacter baylyi ADP1

54.601

97.41

0.532
  pilB Acinetobacter baumannii D1279779

52.323

98.606

0.516
  pilB Legionella pneumophila strain ERS1305867

51.724

98.207

0.508
  pilF Neisseria gonorrhoeae MS11

47.51

96.016

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

41.586

100

0.428
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.26

98.008

0.404
  pilB Haemophilus influenzae 86-028NP

40.369

97.211

0.392
  pilB Haemophilus influenzae Rd KW20

40.329

96.813

0.39
  pilB Glaesserella parasuis strain SC1401

37.577

97.012

0.365