Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LXG94_RS25715 Genome accession   NZ_CP090179
Coordinates   3288378..3290063 (-) Length   561 a.a.
NCBI ID   WP_005446257.1    Uniprot ID   -
Organism   Vibrio harveyi strain XH2145     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3283378..3295063
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LXG94_RS25685 (LXG94_25685) rplS 3283819..3284172 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  LXG94_RS25690 (LXG94_25690) yacG 3284539..3284733 (-) 195 WP_005446249.1 DNA gyrase inhibitor YacG -
  LXG94_RS25695 (LXG94_25695) zapD 3284796..3285536 (-) 741 WP_038897986.1 cell division protein ZapD -
  LXG94_RS25700 (LXG94_25700) coaE 3285564..3286178 (-) 615 WP_038897988.1 dephospho-CoA kinase -
  LXG94_RS25705 (LXG94_25705) pilD 3286179..3287048 (-) 870 WP_005446255.1 A24 family peptidase Machinery gene
  LXG94_RS25710 (LXG94_25710) pilC 3287121..3288344 (-) 1224 WP_005446256.1 type II secretion system F family protein Machinery gene
  LXG94_RS25715 (LXG94_25715) pilB 3288378..3290063 (-) 1686 WP_005446257.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LXG94_RS25720 (LXG94_25720) pilA 3290067..3290531 (-) 465 WP_005446258.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  LXG94_RS25725 (LXG94_25725) nadC 3290796..3291683 (-) 888 WP_029790346.1 carboxylating nicotinate-nucleotide diphosphorylase -
  LXG94_RS25730 (LXG94_25730) ampD 3291776..3292327 (+) 552 WP_038897989.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  LXG94_RS25735 (LXG94_25735) pdhR 3292732..3293499 (+) 768 WP_009699648.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62029.80 Da        Isoelectric Point: 5.2849

>NTDB_id=640996 LXG94_RS25715 WP_005446257.1 3288378..3290063(-) (pilB) [Vibrio harveyi strain XH2145]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRQPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=640996 LXG94_RS25715 WP_005446257.1 3288378..3290063(-) (pilB) [Vibrio harveyi strain XH2145]
ATGTTAACCAACCTCTCAACAGTTCTTCGTCAAGCGGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCACATGAATTGACTGAGCACCTTA
GCTCCATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGCCAAAAGCTTGGCTTACGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCCACATTAATACTTGCGGTTGCAGACCCAACTAACTT
GCAAGCGGAAGATGACTTTCGTTTTGCTACCGGTTTACAAGTCGAGCTTGTTCTGGCGGACTTTAAAGAACTCACCGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTTAGTCGTTATATTAA
CCAAATTCTGCTCGATGCCGTTCGTAAAGGGGCTTCTGATATTCACTTCGAGCCCTATGAAAACATGTATCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAACAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGCATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGACATGCGAGTCTCCACGCTGCCAACTCTGTTTGGGGAGAAAATCGTACTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACGGGACCAACGGGCAGCGGCAAAACGGTTTCTCTTTACACTGGTTTGAGCATCCTCAATAAAACCGAGATCAA
CATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTACCCGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
GCTTTGCAGAAGCGCTTCGCTCTTTCTTACGTCAAGATCCCGATGTAGTCATGGTGGGTGAGATCCGAGATCTCGACACG
GCAGAAATCGCGATCAAAGCGTCACAAACCGGACACTTAGTCCTTTCTACCCTGCATACCAACTCCGCCGCCGAGACGGT
CATTCGCTTATCAAATATGGGGGTAGAAAGCTTTAACCTCGCATCCTCTCTTAGCTTGATCATCGCTCAGCGTTTAGCAC
GAAAGCTTTGTCCACATTGCAGACAACCTCAAGAACCTAACAGCCAACTTCAACATATTGGAATTACCAGCACTGAAGAT
ATCTTCCAAGCGAATCCTGATGGTTGTAACGAATGCACCCAAGGATACTCTGGTCGCACTGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTGTCAAATGCGCTCATCAAAGGCGCTTCAGTACATGAATTAGAAAAGCTAGCGATTGCCAATGGTA
TGCAGACTCTACAAATGTCCGGCATTGAAAAGCTCAAACAAGGCGTCACCAGCTTTAGTGAGCTGCAACGCGTTCTCTAT
TTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-142)


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

96.613

100

0.966
  pilB Vibrio parahaemolyticus RIMD 2210633

89.661

100

0.897
  pilB Vibrio cholerae strain A1552

73.132

100

0.733
  pilB Acinetobacter baylyi ADP1

48.294

99.287

0.479
  pilB Acinetobacter baumannii D1279779

51.838

92.157

0.478
  pilB Legionella pneumophila strain ERS1305867

48.155

96.613

0.465
  pilF Neisseria gonorrhoeae MS11

43.594

100

0.437
  pilB/pilB1 Synechocystis sp. PCC 6803

37.037

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.918

99.465

0.367
  pilF Thermus thermophilus HB27

36.477

100

0.365