Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   D1115_RS03025 Genome accession   NZ_CP032093
Coordinates   583748..585433 (-) Length   561 a.a.
NCBI ID   WP_128810218.1    Uniprot ID   -
Organism   Vibrio alfacsensis strain CAIM 1831     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 578748..590433
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D1115_RS02995 (D1115_03000) rplS 579297..579650 (+) 354 WP_128810212.1 50S ribosomal protein L19 -
  D1115_RS03000 (D1115_03005) yacG 579917..580111 (-) 195 WP_128810213.1 DNA gyrase inhibitor YacG -
  D1115_RS03005 (D1115_03010) zapD 580175..580915 (-) 741 WP_128810214.1 cell division protein ZapD -
  D1115_RS03010 (D1115_03015) coaE 580942..581556 (-) 615 WP_128810215.1 dephospho-CoA kinase -
  D1115_RS03015 (D1115_03020) pilD 581557..582426 (-) 870 WP_128810216.1 prepilin peptidase Machinery gene
  D1115_RS03020 (D1115_03025) pilC 582491..583714 (-) 1224 WP_128810217.1 type II secretion system F family protein Machinery gene
  D1115_RS03025 (D1115_03030) pilB 583748..585433 (-) 1686 WP_128810218.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D1115_RS03030 (D1115_03035) - 585454..585906 (-) 453 WP_128810219.1 pilin -
  D1115_RS03035 (D1115_03040) nadC 586130..587017 (-) 888 WP_128810220.1 carboxylating nicotinate-nucleotide diphosphorylase -
  D1115_RS03040 (D1115_03045) ampD 587110..587667 (+) 558 WP_128810221.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  D1115_RS03045 (D1115_03050) pdhR 588054..588821 (+) 768 WP_128810222.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62654.65 Da        Isoelectric Point: 5.5981

>NTDB_id=313694 D1115_RS03025 WP_128810218.1 583748..585433(-) (pilB) [Vibrio alfacsensis strain CAIM 1831]
MQTNLLTILRQAGIITLAQEESLTQQTMASGLSVSEALITSDLFQADEITEQLSLIFGLSRTTLHQYEYAALCQQLGLRE
LITRHNALPLRQSNNTLMLAVSDPTNFQAEDDFRFATGLQVELVLADFRELTSAIRRLYGRAIIEDKSGLKEINQEELAH
LVDISQEEVEHIEDLSQDNSPVSRYIHQILLDAVRKSASDIHFEPYENLYRVRLRCDGILVESQQPPSHLSRRLSARIKI
LSRLDISERRLPQDGRIKLKLNQETAIDIRVSTLPTLFGEKLVLRLLHSNASDLNIDKLGYNEHQKQLYLNALQRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINIATAEDPVEINLPGINQVQVQPQIGFGFSEALRAFLRQDPDIIMLGEIRDLDT
AENAIKASQTGHLVLSTLHTNSTAETIIRLSNMGIERFNLAGSLSLIIAQRLARKLCSHCKIPQPLDAQLQHIGIVATDL
IYQANPDGCNECTLGYSGRTGIYEMMHFDESLSEALMTGASIHEIEKLAIANGMQTLQMSGIEKLRQGVTSLSELKRVLH
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=313694 D1115_RS03025 WP_128810218.1 583748..585433(-) (pilB) [Vibrio alfacsensis strain CAIM 1831]
ATGCAAACCAACCTCTTAACGATTCTTCGCCAAGCAGGAATAATCACCCTAGCTCAAGAAGAGTCCTTAACCCAACAGAC
CATGGCTTCTGGTCTCTCTGTATCAGAAGCTTTGATCACCAGTGATTTATTTCAAGCAGACGAAATAACGGAGCAGTTGA
GCCTAATATTTGGTTTATCGCGTACCACTCTTCACCAATACGAATATGCTGCACTGTGTCAACAATTGGGGCTTCGCGAG
CTGATCACTCGGCACAATGCGCTACCACTTAGACAAAGTAACAATACACTCATGTTGGCGGTTTCTGATCCCACCAACTT
TCAAGCTGAAGATGACTTTCGTTTTGCGACTGGATTGCAAGTCGAATTGGTTCTTGCTGATTTTAGAGAACTCACTTCTG
CGATTCGACGCTTATATGGCCGCGCCATTATTGAAGATAAGTCTGGATTAAAGGAGATCAATCAGGAAGAACTCGCCCAT
CTCGTCGATATCAGCCAAGAAGAAGTTGAGCATATTGAAGACCTAAGCCAAGACAATTCTCCGGTGAGTCGCTATATCCA
CCAGATCTTGTTGGACGCGGTACGAAAGTCTGCCTCTGATATACATTTCGAACCCTATGAGAATCTATATCGAGTTCGCT
TACGCTGTGATGGCATCTTAGTCGAAAGCCAACAACCTCCTAGCCACCTAAGTCGCAGGCTTTCTGCCCGTATAAAAATC
CTATCAAGACTCGATATCTCTGAACGGCGCTTACCTCAAGATGGGCGCATCAAGCTCAAACTCAACCAAGAAACGGCCAT
TGATATACGCGTATCCACACTGCCAACCTTGTTTGGTGAAAAGCTCGTATTGCGTCTACTTCATAGTAATGCCAGCGATT
TAAACATTGATAAGCTCGGTTATAACGAACATCAAAAACAGCTGTATCTAAATGCGCTGCAACGGCCTCAAGGGATGATC
CTCATGACGGGACCAACTGGCAGTGGGAAAACCGTATCGCTTTATACTGGCCTCAACATTCTCAACAAGCCAGAAATCAA
TATCGCGACAGCAGAAGACCCGGTTGAAATCAACTTACCCGGCATTAATCAGGTTCAAGTTCAGCCCCAAATCGGCTTTG
GGTTCTCCGAGGCTCTGCGTGCTTTTTTACGACAAGATCCCGATATCATCATGCTTGGCGAGATCCGGGACCTTGATACG
GCTGAAAATGCGATCAAAGCCTCTCAGACAGGTCACTTAGTGTTATCTACTCTTCATACAAACTCAACGGCCGAAACAAT
CATACGGCTATCAAACATGGGGATTGAGCGATTTAATCTCGCTGGATCACTAAGCTTAATCATTGCTCAGCGCCTTGCGA
GAAAACTGTGTTCCCATTGTAAAATCCCTCAACCACTCGATGCTCAGCTACAGCACATTGGCATCGTTGCGACCGATCTT
ATTTATCAAGCCAACCCAGATGGCTGCAATGAATGCACACTAGGTTATTCAGGACGTACGGGGATCTACGAGATGATGCA
TTTTGACGAGTCATTATCTGAGGCACTCATGACAGGCGCATCAATACACGAAATAGAAAAGCTCGCTATCGCAAATGGTA
TGCAAACTCTACAAATGTCAGGAATAGAAAAGCTTCGGCAAGGTGTTACCAGCCTGAGTGAGTTAAAGCGTGTCCTCCAC
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)

(39-141)


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

79.679

100

0.797
  pilB Vibrio parahaemolyticus RIMD 2210633

79.323

100

0.793
  pilB Vibrio cholerae strain A1552

71.174

100

0.713
  pilB Acinetobacter baumannii D1279779

50.575

93.048

0.471
  pilB Legionella pneumophila strain ERS1305867

47.593

96.257

0.458
  pilB Acinetobacter baylyi ADP1

49.323

92.157

0.455
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilF Thermus thermophilus HB27

37.523

97.861

0.367
  pilB Haemophilus influenzae 86-028NP

42.094

86.809

0.365
  pilB Haemophilus influenzae Rd KW20

41.822

86.096

0.36

Multiple sequence alignment