Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VFH86_RS02315 Genome accession   NZ_CP142014
Coordinates   483659..485347 (-) Length   562 a.a.
NCBI ID   WP_148524149.1    Uniprot ID   -
Organism   Vibrio cholerae strain LK-18     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 478659..490347
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VFH86_RS02290 (VFH86_02290) yacG 479725..479922 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  VFH86_RS02295 (VFH86_02295) zapD 480080..480820 (-) 741 WP_000207194.1 cell division protein ZapD -
  VFH86_RS02300 (VFH86_02300) coaE 480852..481460 (-) 609 WP_033928827.1 dephospho-CoA kinase -
  VFH86_RS02305 (VFH86_02305) pilD 481457..482332 (-) 876 WP_114762862.1 A24 family peptidase Machinery gene
  VFH86_RS02310 (VFH86_02310) pilC 482390..483616 (-) 1227 WP_000648510.1 type II secretion system F family protein Machinery gene
  VFH86_RS02315 (VFH86_02315) pilB 483659..485347 (-) 1689 WP_148524149.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VFH86_RS02320 (VFH86_02320) pilA 485356..485829 (-) 474 WP_331305089.1 pilin Machinery gene
  VFH86_RS02325 (VFH86_02325) nadC 486074..486964 (-) 891 WP_000665275.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VFH86_RS02330 (VFH86_02330) ampD 487266..487811 (+) 546 WP_001959072.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VFH86_RS02335 (VFH86_02335) fldB 487896..488414 (-) 519 WP_000690112.1 flavodoxin FldB -
  VFH86_RS02340 (VFH86_02340) xerD 488552..489460 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  VFH86_RS02345 (VFH86_02345) dsbC 489477..490229 (+) 753 WP_345658289.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62048.11 Da        Isoelectric Point: 6.0856

>NTDB_id=920928 VFH86_RS02315 WP_148524149.1 483659..485347(-) (pilB) [Vibrio cholerae strain LK-18]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHAQELTEQLSHIFGLPETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=920928 VFH86_RS02315 WP_148524149.1 483659..485347(-) (pilB) [Vibrio cholerae strain LK-18]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCGACGCAAGAACAAGCGGTGGTTACACAGGT
TAGCGCTTCGGGAACGTCGGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACGCCCAAGAACTCACCGAGCAACTGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCAACTTGTGCCAACAGCTTGGGCTGCGTGAA
CTGATTACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTACTGCTGCTCGCCGTCTCTGACCCGACCTTACT
GCAAGCTGAAGAAGAGTTTCGTTTTGCCACAGGATTACAAGTTGAACTGGCGCTAGCCGATCACCGCGCACTGCAAGCGG
CGATTCGCCGTTTGTATGGCAGATCTATTCAAGGCGCCGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGATGACGAACTGCAATCGATCGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTGCGCAAAGGCGCCTCCGATATTCATTTTGAGCCGTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGGATCTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCTGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGTTTGCCTCAAGACGGGCGAATTAAACTGCGCCTAAGCCGCGATACCGCGAT
TGATATGCGTGTATCCACGCTTCCTACGTTATGGGGCGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAACGCCCTCAAAAGACCGCAAGGGATGATT
TTAATGACCGGCCCAACCGGCAGCGGCAAAACCGTTTCACTCTATACTGGGCTGCGCATTCTTAACACGTCACAGATCAA
TATCTCCACCGCGGAAGATCCGGTGGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTACGCCAAGATCCGGATGTGGTGATGGTCGGTGAAATACGCGATCTGGAAACC
GCCGAAATCGCGGTTAAAGCCGCGCAAACCGGCCACTTAGTGCTTTCCACCCTGCACACCAACTCGGCCGCCGAAACCGT
GATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAATCTGGCGTCCTCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCTTGTGTAAACATTGCAAAATCGCGGTGCGCCCTTCTGCCCTATTGCAAAGTCAATTTGCGTTTCAGCCCAATGAA
ATCTTGTATGAAGCGAATGCGGCGGGGTGTAACGAGTGTACGGGCGGATATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAGCGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
TATTTTTAA

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

99.644

100

0.996
  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

50.29

91.993

0.463
  pilF Neisseria gonorrhoeae MS11

45.552

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

37

100

0.395
  pilF Thermus thermophilus HB27

40.111

96.263

0.386
  pilB Haemophilus influenzae 86-028NP

39.658

93.772

0.372
  pilB Haemophilus influenzae Rd KW20

39.279

93.772

0.368