Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AB5Y62_RS02695 Genome accession   NZ_OZ078860
Coordinates   542515..544200 (-) Length   561 a.a.
NCBI ID   WP_368084938.1    Uniprot ID   -
Organism   Vibrio splendidus isolate A06     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 537515..549200
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB5Y62_RS02665 rplS 537970..538323 (+) 354 WP_004735514.1 50S ribosomal protein L19 -
  AB5Y62_RS02670 yacG 538671..538868 (-) 198 WP_004735515.1 DNA gyrase inhibitor YacG -
  AB5Y62_RS02675 zapD 538950..539690 (-) 741 WP_368084106.1 cell division protein ZapD -
  AB5Y62_RS02680 coaE 539717..540331 (-) 615 WP_368084107.1 dephospho-CoA kinase -
  AB5Y62_RS02685 pilD 540334..541203 (-) 870 WP_017087402.1 A24 family peptidase Machinery gene
  AB5Y62_RS02690 pilC 541271..542500 (-) 1230 WP_256799836.1 type II secretion system F family protein Machinery gene
  AB5Y62_RS02695 pilB 542515..544200 (-) 1686 WP_368084938.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB5Y62_RS02700 pilA 544205..544630 (-) 426 WP_368084108.1 pilin Machinery gene
  AB5Y62_RS02705 nadC 544886..545776 (-) 891 WP_102448387.1 carboxylating nicotinate-nucleotide diphosphorylase -
  AB5Y62_RS02710 ampD 545860..546459 (+) 600 WP_368084109.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  AB5Y62_RS02715 pdhR 546940..547701 (+) 762 WP_004735446.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62054.63 Da        Isoelectric Point: 4.9243

>NTDB_id=1166582 AB5Y62_RS02695 WP_368084938.1 542515..544200(-) (pilB) [Vibrio splendidus isolate A06]
MLTNLPTVLRQASLISLTQEQAVAEHVHASGVSTPEALLVLDFFTGDSLANNIKTIFGLPLVQLASTDYETLCEQLGLRE
LITKYRAIPISVSSSTLTLASADPTDLQAEDDFRFATGLQIELVVANYSELESAIRKLYGRSISGQDSKRKEITQDELAN
LVEISDDEITSIEDLSQDDSPVSRFINQILVDAARKGASDIHFEPYEENYRVRLRCDGILVEIQQPASHLSRRLSARLKI
LAKLDIAERRLPQDGRIKLRLNDELAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYSEDQKALYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRVLNTTERNISTAEDPVEINLCGINQVQVSPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAIKASQTGHLVLSTLHTNSAAETVTRLSHMGIEPFNLASSLSLIIAQRLARRLCDHCKAADDSPDIFLRHSIPNSQI
IYKASSQGCNECNQGYSGRVGIYEVMPFSDQLKNSLIDKPNALAIENLARREGMRTLQESGLDKLLEGTTSYQELQRVLY
L

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1166582 AB5Y62_RS02695 WP_368084938.1 542515..544200(-) (pilB) [Vibrio splendidus isolate A06]
GTGCTAACCAACCTCCCAACCGTTCTACGTCAGGCTAGTTTAATTAGCCTGACACAAGAACAAGCCGTTGCGGAACATGT
ACATGCTTCAGGTGTTTCTACGCCTGAAGCTTTGCTCGTTCTTGATTTCTTCACCGGCGATTCCTTAGCAAATAACATCA
AAACTATTTTCGGTTTACCGTTAGTACAACTAGCCAGTACTGACTACGAGACCTTGTGTGAGCAATTAGGGCTTCGTGAG
CTTATAACCAAGTATCGCGCTATCCCAATATCTGTTTCTAGCTCCACTCTCACACTCGCTTCTGCCGACCCTACGGACTT
ACAAGCTGAAGACGACTTTCGCTTTGCGACAGGATTACAGATTGAATTGGTTGTCGCTAATTACTCTGAATTAGAAAGTG
CAATACGAAAGCTGTATGGCCGTTCTATTTCCGGGCAAGATTCGAAACGTAAAGAGATCACCCAAGATGAGCTCGCCAAC
CTTGTTGAGATATCTGATGACGAGATAACTTCGATTGAAGACCTCAGCCAAGATGACTCCCCTGTCAGTCGCTTTATCAA
TCAGATTCTAGTCGATGCAGCACGTAAAGGCGCATCGGATATCCACTTCGAACCTTATGAAGAAAACTACCGCGTACGTC
TACGTTGCGATGGCATCCTTGTCGAAATTCAACAGCCCGCTTCCCATTTAAGTCGCCGTTTATCAGCTCGCTTGAAGATC
CTCGCTAAACTCGATATCGCCGAGCGTCGCTTACCTCAAGATGGTCGTATTAAATTACGTTTAAACGACGAACTGGCGAT
TGATATGCGTGTATCGACGCTGCCAACATTATGGGGAGAAAAGATCGTTCTTCGTCTTCTAGACAGCAGCGCTGCCAATC
TCGATATCGATAAACTCGGTTACAGCGAGGATCAAAAAGCACTCTACCTAAATGCCCTAAAACGCCCGCAAGGAATGATC
TTAATGACTGGGCCAACGGGCAGCGGCAAAACGGTTTCTCTTTATACTGGCCTTCGAGTGCTCAACACCACTGAACGCAA
CATCTCAACAGCCGAAGATCCAGTGGAGATTAACCTGTGTGGTATCAATCAGGTACAAGTGTCACCTAAGATCGGCTTTG
GTTTCGCTGAAGCGTTGCGGTCATTTTTACGACAAGATCCTGATGTGGTAATGGTCGGTGAGATCCGCGACTTGGAAACC
GCAGAGATCGCGATCAAAGCCTCACAAACCGGACACTTAGTGCTTTCGACACTGCACACCAATTCTGCAGCAGAAACCGT
GACTCGCCTCTCTCATATGGGGATAGAACCTTTTAACCTCGCTTCATCATTAAGTTTAATTATCGCCCAACGACTGGCAA
GACGATTGTGCGACCACTGTAAAGCCGCTGATGACTCACCTGATATATTTCTACGCCACTCTATTCCCAATAGCCAAATC
ATCTACAAAGCCAGCTCACAAGGATGTAATGAGTGTAATCAGGGATACTCGGGGCGAGTCGGTATCTATGAAGTCATGCC
GTTTAGCGACCAACTGAAAAATAGCCTGATCGACAAACCGAACGCGTTAGCCATTGAAAACTTGGCACGTCGAGAAGGCA
TGAGAACTTTACAAGAGTCAGGTCTAGATAAACTGCTTGAAGGCACCACCAGCTATCAAGAGCTACAACGTGTTCTATAC
CTATAA

Domains

Predicted by InterproScan.

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

(43-141)

Type II/IV secretion system protein (T2SSE)

(188-455)


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

73.404

100

0.738
  pilB Vibrio campbellii strain DS40M4

70.285

100

0.704
  pilB Vibrio parahaemolyticus RIMD 2210633

69.929

100

0.701
  pilB Acinetobacter baumannii D1279779

50

93.048

0.465
  pilB Acinetobacter baylyi ADP1

49.234

93.048

0.458
  pilB Legionella pneumophila strain ERS1305867

50.196

90.909

0.456
  pilF Neisseria gonorrhoeae MS11

42.857

100

0.433

Multiple sequence alignment