Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OCW38_RS02745 Genome accession   NZ_AP025480
Coordinates   559256..560941 (-) Length   561 a.a.
NCBI ID   WP_261895002.1    Uniprot ID   -
Organism   Vibrio cyclitrophicus strain LMG 21359     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 554256..565941
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OCW38_RS02715 rplS 554799..555152 (+) 354 WP_004735514.1 50S ribosomal protein L19 -
  OCW38_RS02720 yacG 555413..555610 (-) 198 WP_010435916.1 DNA gyrase inhibitor YacG -
  OCW38_RS02725 zapD 555692..556432 (-) 741 WP_010435917.1 cell division protein ZapD -
  OCW38_RS02730 coaE 556459..557073 (-) 615 WP_010435920.1 dephospho-CoA kinase -
  OCW38_RS02735 pilD 557076..557945 (-) 870 WP_102397192.1 A24 family peptidase Machinery gene
  OCW38_RS02740 pilC 558012..559241 (-) 1230 WP_261895000.1 type II secretion system F family protein Machinery gene
  OCW38_RS02745 pilB 559256..560941 (-) 1686 WP_261895002.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OCW38_RS02750 - 560941..561405 (-) 465 WP_261895004.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OCW38_RS02755 nadC 561661..562551 (-) 891 WP_261895006.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OCW38_RS02760 ampD 562635..563234 (+) 600 WP_261895008.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  OCW38_RS02765 pdhR 563716..564477 (+) 762 WP_010435941.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62023.65 Da        Isoelectric Point: 5.2051

>NTDB_id=91918 OCW38_RS02745 WP_261895002.1 559256..560941(-) (pilB) [Vibrio cyclitrophicus strain LMG 21359]
MLTNLPTVLRQAGLLSLTQEQAVAEQVQASGISTPEALLALDFFSGDSLANNIKTIFGLPLVQLANTDYETLRDQLGLRE
LITKYRAIPISVSSSTLTLASADPTDLQAEDDFRFATGLQVELVVANYSELEGAIRKLYGRSISGQDSKRKEITQDELAN
LVKVSDDEITSIEDLSQDDSPVSRFINQILVDAVRKGASDIHFEPYEEHYRVRLRCDGILVETQQPASHLSRRLSARLKI
LAKLDIAERRLPQDGRIKLRLNDELAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYSEAQKALYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRVLNTSERNISTAEDPVEINLCGINQVQVTPKIGFGFAEALRSFLRQDPDIVMVGEIRDLET
AEIAIKASQTGHLVLSTLHTNSAAETVTRLAHMGIEPFNLASSLSLIIAQRLARRLCNHCKETDDSPDIFLRHSIPNSQT
IYKANSQGCNECNQGYSGRVGIYEVMPFTDNLKTSLINKPNALAIEALARREGMRTLQESGLDKLLEGTTSYQELQRVLY
L

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=91918 OCW38_RS02745 WP_261895002.1 559256..560941(-) (pilB) [Vibrio cyclitrophicus strain LMG 21359]
ATGCTCACTAACCTCCCAACCGTTCTACGTCAGGCTGGCTTACTTAGCCTGACTCAAGAACAAGCCGTTGCGGAACAAGT
ACAAGCTTCAGGCATTTCGACACCTGAAGCTTTGCTCGCTCTGGATTTCTTCAGCGGCGATTCCTTAGCAAACAACATTA
AAACCATCTTCGGCTTACCCTTAGTACAACTTGCCAATACGGACTATGAAACCTTACGTGACCAATTAGGGCTTCGCGAA
CTGATTACTAAATATCGTGCTATCCCGATTTCAGTTTCTAGCTCAACTCTCACACTCGCTTCTGCCGACCCTACGGATTT
ACAGGCTGAAGATGACTTCCGCTTTGCGACAGGGTTGCAGGTTGAATTGGTTGTTGCTAATTACTCTGAATTAGAAGGCG
CGATACGCAAGCTGTATGGTCGATCTATTTCCGGGCAAGATTCTAAGCGTAAAGAGATCACCCAAGATGAGCTAGCTAAC
CTCGTGAAGGTATCTGACGACGAAATAACGTCGATTGAAGATCTCAGCCAAGACGACTCCCCTGTGAGTCGCTTTATCAA
TCAGATTCTGGTTGATGCGGTACGTAAAGGCGCATCGGACATCCATTTTGAGCCCTACGAAGAACACTACCGAGTGCGCC
TACGTTGCGATGGCATTCTTGTCGAGACCCAACAGCCCGCCTCTCATTTAAGCCGTCGATTATCAGCGCGCTTAAAGATC
CTCGCAAAACTGGATATTGCAGAACGTCGCTTACCTCAAGATGGTCGTATTAAACTGCGTTTAAATGACGAACTGGCAAT
TGATATGCGCGTATCAACACTGCCTACCTTATGGGGCGAGAAGATCGTACTGCGATTGCTTGATAGCAGTGCGGCCAATC
TCGATATCGATAAGCTCGGTTACAGCGAGGCGCAAAAAGCCCTCTACCTCAATGCACTAAAGCGCCCGCAAGGGATGATC
TTAATGACCGGGCCAACCGGCAGCGGTAAAACGGTTTCTCTTTATACTGGACTTCGAGTACTCAACACCTCTGAACGCAA
CATCTCAACAGCTGAAGACCCTGTAGAGATTAACCTGTGTGGCATCAATCAGGTACAAGTGACGCCTAAGATTGGCTTTG
GTTTCGCCGAGGCACTACGATCGTTTTTACGACAAGACCCAGACATCGTGATGGTTGGAGAAATCCGAGATTTAGAAACC
GCCGAGATCGCGATCAAAGCATCGCAAACAGGTCACTTGGTGCTTTCTACACTGCACACCAATTCTGCTGCTGAAACCGT
AACTCGGCTTGCTCACATGGGAATTGAACCCTTTAATCTTGCTTCGTCATTGAGCCTAATCATAGCCCAACGACTGGCAA
GACGCTTGTGCAACCATTGCAAAGAAACAGACGACTCGCCGGACATATTTCTGCGTCACTCTATCCCAAACAGCCAAACC
ATCTACAAAGCCAACTCTCAAGGCTGTAATGAGTGTAACCAAGGTTACTCAGGTCGAGTGGGTATCTATGAAGTGATGCC
GTTTACCGACAACCTAAAAACCAGCCTTATCAATAAACCCAATGCGCTAGCGATTGAAGCTCTCGCACGTCGAGAAGGCA
TGCGCACTCTGCAAGAGTCAGGGCTAGATAAACTGCTTGAAGGCACCACCAGCTATCAAGAGCTACAACGTGTTCTATAC
CTATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(12-141)


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 cholerae strain A1552

74.113

100

0.745
  pilB Vibrio parahaemolyticus RIMD 2210633

70.819

100

0.709
  pilB Vibrio campbellii strain DS40M4

70.641

100

0.708
  pilB Legionella pneumophila strain ERS1305867

48.101

98.574

0.474
  pilB Acinetobacter baumannii D1279779

50.867

92.513

0.471
  pilB Acinetobacter baylyi ADP1

49.903

92.157

0.46
  pilF Neisseria gonorrhoeae MS11

43.64

100

0.44
  pilF Thermus thermophilus HB27

39.155

92.87

0.364

Multiple sequence alignment