Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   Vc3S01_RS03210 Genome accession   NZ_CP020076
Coordinates   641230..642915 (-) Length   561 a.a.
NCBI ID   WP_045421881.1    Uniprot ID   -
Organism   Vibrio campbellii strain 20130629003S01     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 636230..647915
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Vc3S01_RS03175 (Vc3S01_0556) rplS 636372..636725 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  Vc3S01_RS03185 (Vc3S01_0558) yacG 637390..637590 (-) 201 WP_012128882.1 DNA gyrase inhibitor YacG -
  Vc3S01_RS03190 (Vc3S01_0559) zapD 637647..638387 (-) 741 WP_012128881.1 cell division protein ZapD -
  Vc3S01_RS03195 (Vc3S01_0560) coaE 638415..639029 (-) 615 WP_045369833.1 dephospho-CoA kinase -
  Vc3S01_RS03200 (Vc3S01_0561) pilD 639030..639899 (-) 870 WP_045381296.1 A24 family peptidase Machinery gene
  Vc3S01_RS03205 (Vc3S01_0562) pilC 639972..641195 (-) 1224 WP_077200206.1 type II secretion system F family protein Machinery gene
  Vc3S01_RS03210 (Vc3S01_0563) pilB 641230..642915 (-) 1686 WP_045421881.1 type IV-A pilus assembly ATPase PilB Machinery gene
  Vc3S01_RS03215 (Vc3S01_0564) pilA 642915..643331 (-) 417 WP_045381308.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  Vc3S01_RS03225 (Vc3S01_0565) nadC 643596..644483 (-) 888 WP_077200208.1 carboxylating nicotinate-nucleotide diphosphorylase -
  Vc3S01_RS03230 (Vc3S01_0566) ampD 644576..645127 (+) 552 WP_077200209.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  Vc3S01_RS03235 (Vc3S01_0567) pdhR 645532..646299 (+) 768 WP_005428674.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62046.79 Da        Isoelectric Point: 5.2806

>NTDB_id=220855 Vc3S01_RS03210 WP_045421881.1 641230..642915(-) (pilB) [Vibrio campbellii strain 20130629003S01]
MHTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYASLCQTLGLRD
LITRHNALPLNRTSSALILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRSLGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDSQKQLYLNALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDIVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCRQPQEPNSQLQHIGITSTEQ
IFQANPDGCNECTHGYSGRTGIYEVMKFDESLSEALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=220855 Vc3S01_RS03210 WP_045421881.1 641230..642915(-) (pilB) [Vibrio campbellii strain 20130629003S01]
ATGCACACAAACCTCTCAACGGTTCTTCGTCAAGCGGGAATACTGACTTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
TAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTGCTCAGTTCTGGCTTTTTCCAATCTCATGAATTGACTGAGCACCTGA
GCTCTATCTTTGGGCTTTCCTGCACGTCACTCAGTCAGTATGAATACGCTTCGCTATGCCAAACGCTTGGCTTACGCGAT
CTCATCACTCGCCATAACGCTTTGCCGCTTAACCGCACCTCTTCAGCTTTGATTCTCGCGGTTGCCGACCCAACAAACCT
TCAAGCCGAAGATGACTTTCGTTTTGCGACAGGTTTGCAAGTCGAACTTGTCCTCGCTGACTTTCGTGAGCTAACAGCAG
CTATTCGGCGTTTATATGGCCGATCGCTTGGGCAAGAAAAATCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCGGGT
TTGGTTGATATTGGTGAGGATGAAATTGAGAACATCGAAGATCTCAGCCAAGATGAATCGCCGGTCAGTCGCTATATCAA
CCAAATTTTACTCGATGCTGTCCGTAAAGGGGCTTCCGATATTCACTTCGAACCCTACGAAAACATGTACCGCGTGCGCT
TGCGTTGCGATGGCATCTTAATTGAAATTCAGCAGCCTCCGAGTCATTTAAGCCGTCGCCTTTCAGCTCGGATAAAAATC
TTATCTAAGCTTGATATCGCCGAGCGCCGTTTACCACAGGATGGGCGCATCAAGCTCAAATTAAACCAAGACACTGCAAT
TGATATGCGTGTCTCCACACTACCAACTCTTTTTGGGGAAAAGATAGTTCTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAGCTCGGCTATAGCGACTCACAAAAACAACTTTATTTGAATGCCCTGCGACGACCTCAAGGTATGATC
CTGATGACAGGCCCAACGGGTAGCGGTAAAACGGTCTCGCTCTATACTGGATTGAGTATTCTTAATAAGCCAGAGATCAA
TATCTCAACCGCTGAAGATCCCGTTGAGATTAACCTGCCCGGCATTAACCAAGTTCAAGTTCAGCCAAAGATCGGCTTTG
GTTTTGCAGAAGCGCTGCGCTCTTTCTTACGTCAAGACCCTGATATAGTCATGGTGGGCGAGATCCGAGATCTCGACACA
GCAGAAATCGCGATCAAAGCATCACAGACTGGCCACTTAGTTCTCTCCACTTTGCACACGAACTCAGCTGCCGAGACTGT
CATTCGCTTGTCTAATATGGGCGTAGAAAGCTTTAACCTCGCCTCCTCTCTCAGTTTGATCATCGCCCAACGTTTGGCTA
GAAAACTTTGTCCATATTGTAGACAACCTCAAGAGCCAAACAGCCAACTTCAACATATTGGAATCACCAGCACCGAACAG
ATCTTTCAAGCTAATCCCGACGGTTGTAACGAGTGTACCCATGGTTATTCAGGGCGAACCGGCATTTACGAAGTGATGAA
GTTTGACGAATCCCTTTCAGAAGCACTCATCAAAGGCGCTTCAGTACACGAATTAGAAAAACTCGCCATTGCCAATGGTA
TGCAAACCCTACAAATGTCTGGCATCGAAAAACTCAAACAAGGCATTACCAGCTTCAGCGAATTGCAGCGCGTTCTCTAC
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

98.039

100

0.98
  pilB Vibrio parahaemolyticus RIMD 2210633

90.731

100

0.907
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Acinetobacter baylyi ADP1

48.115

99.287

0.478
  pilB Acinetobacter baumannii D1279779

51.445

92.513

0.476
  pilB Legionella pneumophila strain ERS1305867

48.524

96.613

0.469
  pilF Neisseria gonorrhoeae MS11

43.617

100

0.439
  pilB/pilB1 Synechocystis sp. PCC 6803

36.869

100

0.39
  pilF Thermus thermophilus HB27

37.011

100

0.371
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.738

99.465

0.365

Multiple sequence alignment