Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VUK78_RS13655 Genome accession   NZ_CP150467
Coordinates   637406..639091 (-) Length   561 a.a.
NCBI ID   WP_340700209.1    Uniprot ID   -
Organism   Vibrio harveyi strain NH-LM1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 632406..644091
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VUK78_RS13625 (VUK78_13625) rplS 632648..633001 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  VUK78_RS13630 (VUK78_13630) yacG 633567..633767 (-) 201 WP_026000212.1 DNA gyrase inhibitor YacG -
  VUK78_RS13635 (VUK78_13635) zapD 633824..634564 (-) 741 WP_005446251.1 cell division protein ZapD -
  VUK78_RS13640 (VUK78_13640) coaE 634592..635206 (-) 615 WP_017189130.1 dephospho-CoA kinase -
  VUK78_RS13645 (VUK78_13645) pilD 635207..636076 (-) 870 WP_005446255.1 A24 family peptidase Machinery gene
  VUK78_RS13650 (VUK78_13650) pilC 636149..637372 (-) 1224 WP_005446256.1 type II secretion system F family protein Machinery gene
  VUK78_RS13655 (VUK78_13655) pilB 637406..639091 (-) 1686 WP_340700209.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VUK78_RS13660 (VUK78_13660) - 639091..639531 (-) 441 WP_061065377.1 pilin -
  VUK78_RS13665 (VUK78_13665) nadC 639796..640683 (-) 888 WP_029790346.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VUK78_RS13670 (VUK78_13670) ampD 640776..641327 (+) 552 WP_017189135.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VUK78_RS13675 (VUK78_13675) pdhR 641732..642499 (+) 768 WP_005446261.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62000.80 Da        Isoelectric Point: 5.2849

>NTDB_id=970418 VUK78_RS13655 WP_340700209.1 637406..639091(-) (pilB) [Vibrio harveyi strain NH-LM1]
MLSNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRLPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=970418 VUK78_RS13655 WP_340700209.1 637406..639091(-) (pilB) [Vibrio harveyi strain NH-LM1]
ATGCTAAGCAACCTTTCAACGGTTCTTCGCCAAGCAGGAATACTGACTTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCACATGAATTGACTGAGCACCTTA
GCTCCATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGCCAAAAGCTTGGCTTACGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCCACATTAATACTCGCAGTTGCAGACCCGACTAACTT
ACAAGCGGAAGATGACTTTCGTTTTGCTACCGGTTTACAAGTCGAGCTTGTTCTGGCGGATTTTAAAGAACTCACCGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTTAGTCGTTATATTAA
CCAAATTCTGCTCGATGCCGTTCGTAAAGGGGCTTCCGATATTCACTTCGAGCCCTATGAAAACATGTATCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAACAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGCATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGACATGCGAGTCTCCACGCTGCCAACTCTGTTTGGGGAGAAAATCGTACTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACAGGACCAACGGGCAGCGGCAAAACGGTTTCTCTTTACACTGGTTTGAGCATTCTCAATAAAACCGAGATCAA
CATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTGCCCGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
GCTTTGCAGAAGCGCTTCGCTCTTTCTTGCGTCAAGATCCCGATGTAGTCATGGTGGGTGAGATCCGAGATCTCGACACG
GCAGAAATCGCGATCAAAGCGTCACAAACTGGGCACTTAGTCCTTTCTACCCTGCATACCAACTCCGCCGCCGAGACGGT
TATTCGCTTATCAAATATGGGGGTAGAAAGCTTTAACCTCGCATCCTCTCTTAGTTTGATCATCGCTCAGCGTTTAGCTC
GAAAACTTTGTCCACATTGCAGACTACCTCAAGAACCAAACAGCCAACTTCAACATATTGGAATTACCAGCACTGAAGAT
ATCTTCCAAGCGAACCCTGACGGTTGTAACGAATGCACCCAAGGATACTCTGGTCGCACAGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTGTCAAATGCGCTCATCAAAGGTGCTTCAGTGCATGAATTAGAAAAGCTAGCGATTGCCAATGGTA
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

96.257

100

0.963
  pilB Vibrio parahaemolyticus RIMD 2210633

89.661

100

0.897
  pilB Vibrio cholerae strain A1552

72.954

100

0.731
  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

43.06

100

0.431
  pilB/pilB1 Synechocystis sp. PCC 6803

36.364

100

0.399
  pilF Thermus thermophilus HB27

36.477

100

0.365
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.738

99.465

0.365

Multiple sequence alignment