Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   V1M48_RS12870 Genome accession   NZ_CP143559
Coordinates   600003..601688 (-) Length   561 a.a.
NCBI ID   WP_005446257.1    Uniprot ID   -
Organism   Vibrio harveyi strain WHSS0915     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 595003..606688
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V1M48_RS12840 (V1M48_12840) rplS 595444..595797 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  V1M48_RS12845 (V1M48_12845) yacG 596164..596358 (-) 195 WP_005446249.1 DNA gyrase inhibitor YacG -
  V1M48_RS12850 (V1M48_12850) zapD 596421..597161 (-) 741 WP_005446251.1 cell division protein ZapD -
  V1M48_RS12855 (V1M48_12855) coaE 597189..597803 (-) 615 WP_017189130.1 dephospho-CoA kinase -
  V1M48_RS12860 (V1M48_12860) pilD 597804..598673 (-) 870 WP_005446255.1 prepilin peptidase Machinery gene
  V1M48_RS12865 (V1M48_12865) pilC 598746..599969 (-) 1224 WP_258455382.1 type II secretion system F family protein Machinery gene
  V1M48_RS12870 (V1M48_12870) pilB 600003..601688 (-) 1686 WP_005446257.1 type IV-A pilus assembly ATPase PilB Machinery gene
  V1M48_RS12875 (V1M48_12875) pilA 601688..602116 (-) 429 WP_009698754.1 type IV pilin protein Machinery gene
  V1M48_RS12880 (V1M48_12880) nadC 602381..603268 (-) 888 WP_029790346.1 carboxylating nicotinate-nucleotide diphosphorylase -
  V1M48_RS12885 (V1M48_12885) ampD 603361..603912 (+) 552 WP_017189135.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  V1M48_RS12890 (V1M48_12890) pdhR 604317..605084 (+) 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=929684 V1M48_RS12870 WP_005446257.1 600003..601688(-) (pilB) [Vibrio harveyi strain WHSS0915]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRQPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=929684 V1M48_RS12870 WP_005446257.1 600003..601688(-) (pilB) [Vibrio harveyi strain WHSS0915]
ATGCTAACCAACCTCTCAACGGTTCTTCGTCAAGCGGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCACATGAATTGACTGAGCACCTTA
GCTCCATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGCCAAAAGCTTGGCTTGCGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCGACATTAATACTCGCAGTTGCAGACCCAACTAACTT
GCAAGCGGAAGATGACTTTCGTTTTGCTACCGGTTTACAAGTCGAGCTTGTTCTGGCGGACTTTAAAGAACTCACCGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTTAGTCGTTATATTAA
CCAAATTCTGCTCGATGCCGTTCGTAAAGGGGCTTCTGATATTCACTTCGAGCCCTATGAAAACATGTATCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAACAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGCATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGACATGCGAGTCTCCACGCTGCCAACTCTGTTTGGGGAGAAAATCGTACTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACGGGACCAACGGGCAGCGGCAAAACAGTTTCTCTTTACACTGGTTTGAGCATTCTCAATAAAACCGAGATCAA
CATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTACCCGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
GCTTTGCAGAAGCGCTTCGCTCTTTCTTGCGTCAAGATCCCGATGTAGTCATGGTGGGTGAGATCCGAGATCTCGACACG
GCAGAAATCGCGATCAAAGCGTCACAAACCGGGCACTTAGTCCTTTCTACCCTGCACACCAACTCCGCCGCCGAGACGGT
CATTCGCTTATCAAATATGGGGGTAGAAAGCTTTAACCTCGCATCCTCTCTTAGCTTGATCATCGCTCAGCGTTTAGCAC
GAAAGCTTTGTCCACATTGCAGACAACCTCAAGAACCTAACAGCCAACTTCAACATATTGGAATTACCAGCACTGAAGAT
ATCTTCCAAGCGAATCCTGATGGTTGTAACGAATGCACCCAAGGATACTCTGGCCGCACTGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTATCAAATGCGCTCATCAAAGGCGCTTCAGTACACGAATTAGAAAAGCTAGCGATTGCCAATGGTA
TGCAGACTCTACAAATGTCCGGCATTGAAAAGCTCAAACAAGGTGTCACCAGCTTTAGTGAGCTGCAACGTGTTCTCTAT
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