Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   R4540_RS09925 Genome accession   NZ_CP137135
Coordinates   2206165..2207853 (+) Length   562 a.a.
NCBI ID   WP_053048901.1    Uniprot ID   -
Organism   Vibrio cholerae V52     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2201165..2212853
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R4540_RS09895 (R4540_09890) dsbC 2201204..2201956 (-) 753 WP_000115055.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -
  R4540_RS09900 (R4540_09895) xerD 2201973..2202881 (-) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  R4540_RS09905 (R4540_09900) fldB 2203019..2203537 (+) 519 WP_000690110.1 flavodoxin FldB -
  R4540_RS09910 (R4540_09905) ampD 2203688..2204233 (-) 546 WP_000567316.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  R4540_RS09915 (R4540_09910) nadC 2204529..2205419 (+) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -
  R4540_RS09920 (R4540_09915) pilA 2205664..2206134 (+) 471 WP_000649323.1 type IV pilin protein Machinery gene
  R4540_RS09925 (R4540_09920) pilB 2206165..2207853 (+) 1689 WP_053048901.1 type IV-A pilus assembly ATPase PilB Machinery gene
  R4540_RS09930 (R4540_09925) pilC 2207896..2209122 (+) 1227 WP_000648511.1 type II secretion system F family protein Machinery gene
  R4540_RS09935 (R4540_09930) pilD 2209180..2210055 (+) 876 WP_000418755.1 A24 family peptidase Machinery gene
  R4540_RS09940 (R4540_09935) coaE 2210052..2210660 (+) 609 WP_000011559.1 dephospho-CoA kinase -
  R4540_RS09945 (R4540_09940) zapD 2210692..2211432 (+) 741 WP_000207192.1 cell division protein ZapD -
  R4540_RS09950 (R4540_09945) yacG 2211590..2211787 (+) 198 WP_000162866.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62018.12 Da        Isoelectric Point: 6.0856

>NTDB_id=896437 R4540_RS09925 WP_053048901.1 2206165..2207853(+) (pilB) [Vibrio cholerae V52]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHAQELTEQLSHIFGLPETDLSRYDYAPLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAT
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=896437 R4540_RS09925 WP_053048901.1 2206165..2207853(+) (pilB) [Vibrio cholerae V52]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCAACGCAAGAACAAGCGGTGGTTACACAGGT
TAGCGCTTCGGGGACGTCGGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACGCCCAAGAACTGACCGAACAACTGA
GCCATATTTTCGGTTTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCCCCCTGTGTCAACAGCTTGGGCTGCGTGAA
CTGATAACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTACTGCTGCTGGCGGTCTCAGACCCGACCTTGCT
GCAAGCCGAAGAAGAGTTTCGTTTTGCCACAGGATTACAAGTTGAACTGGCATTGGCCGATCACCGCGCGCTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGCTCAATTCAAGGCGCAGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTAGCCACA
CTGGTCAAGGTCAGTGATGACGAGCTGCAATCGATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTGCGCAAAGGCGCCTCCGATATTCATTTTGAGCCGTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGCATCTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCTGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCGCAAGACGGGCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTTTCGACACTTCCCACTTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAACTCTACCTCAACGCCCTGAAAAGACCGCAAGGAATGATT
TTAATGACCGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCGGAAGATCCGGTGGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCCCTACGCTCATTTCTACGTCAAGACCCGGATGTAGTGATGGTCGGCGAAATCCGCGATCTGGAAACC
GCCGAAATCGCGGTCAAAGCCGCGCAAACCGGTCACTTAGTGCTTTCCACCCTGCACACCAACTCGGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAACCTCGCGTCCTCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACACTGCAAAATCGCGGTGCGCCCTTCTGCCCTATTGCAAAGCCAATTTGCATTTCAACCCAATGAA
ATCTTGTATGAAGCGAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGTCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
TACTTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(41-141)


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 cholerae strain A1552

99.288

100

0.993
  pilB Vibrio parahaemolyticus RIMD 2210633

73.843

100

0.738
  pilB Vibrio campbellii strain DS40M4

73.665

100

0.737
  pilB Legionella pneumophila strain ERS1305867

51.81

93.416

0.484
  pilB Acinetobacter baylyi ADP1

50.484

91.993

0.464
  pilB Acinetobacter baumannii D1279779

50.096

92.349

0.463
  pilF Neisseria gonorrhoeae MS11

45.73

100

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

37.417

100

0.402
  pilF Thermus thermophilus HB27

40.665

96.263

0.391
  pilB Haemophilus influenzae 86-028NP

39.469

93.772

0.37