Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY12_RS12705 Genome accession   NZ_CP046846
Coordinates   2773954..2775642 (+) Length   562 a.a.
NCBI ID   WP_158139622.1    Uniprot ID   -
Organism   Vibrio mimicus strain F9458     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2768954..2780642
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY12_RS12675 dsbC 2769261..2770013 (-) 753 WP_000115042.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -
  GPY12_RS12680 xerD 2770030..2770908 (-) 879 WP_031343804.1 site-specific tyrosine recombinase XerD -
  GPY12_RS12685 fldB 2771076..2771594 (+) 519 WP_000690114.1 flavodoxin FldB -
  GPY12_RS12690 ampD 2771652..2772200 (-) 549 WP_158139620.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY12_RS12695 nadC 2772366..2773256 (+) 891 WP_158139621.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY12_RS12700 - 2773501..2773932 (+) 432 WP_187377664.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  GPY12_RS12705 pilB 2773954..2775642 (+) 1689 WP_158139622.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY12_RS12710 pilC 2775681..2776907 (+) 1227 WP_000648443.1 type II secretion system F family protein Machinery gene
  GPY12_RS12715 - 2776970..2777844 (+) 875 Protein_2417 A24 family peptidase -
  GPY12_RS12720 coaE 2777841..2778449 (+) 609 WP_199250766.1 dephospho-CoA kinase -
  GPY12_RS12725 zapD 2778481..2779221 (+) 741 WP_158139623.1 cell division protein ZapD -
  GPY12_RS12730 yacG 2779472..2779669 (+) 198 WP_000162865.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62125.10 Da        Isoelectric Point: 5.5294

>NTDB_id=408833 GPY12_RS12705 WP_158139622.1 2773954..2775642(+) (pilB) [Vibrio mimicus strain F9458]
MLTNLVAILRQAELISSTQEQAVVEQVSASGTSVPEALLELSIFHAQELTEQISHIFGLPETDLSHYDYPNLCQQLGLRE
LITRYEALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVGDEELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYEAQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLNSDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKVAVHPSAILQNQFAFQPQE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMRRATIHQIESLAKTNGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=408833 GPY12_RS12705 WP_158139622.1 2773954..2775642(+) (pilB) [Vibrio mimicus strain F9458]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAAGCTGAGCTGATTAGCTCGACGCAAGAACAAGCTGTGGTCGAACAAGT
CAGCGCTTCTGGCACTTCTGTGCCGGAAGCGTTGCTTGAGTTAAGCATTTTTCACGCACAAGAACTCACTGAACAAATCA
GCCATATTTTCGGCTTACCGGAAACCGATTTAAGCCACTACGATTACCCAAATCTCTGCCAACAGCTTGGTTTACGTGAG
CTGATTACCCGTTATGAAGCGCTCCCCATTGCCAAACAAGGCAATTTGCTGCTGCTCGCGGTTTCTGACCCCACTTTATT
ACAAGCCGAAGAAGAATTTCGCTTTGCTACCGGATTACAAGTGGAACTTGCCCTTGCTGATCATCGCGCTCTGCAAGCTG
CGATTCGCCGTTTGTATGGCCGATCCATTCAGGGTGCCGCCAACCAAGGTAAAGAGATCAGCCAAGATGAATTAGCCAAC
CTAGTCAAAGTCGGGGATGAGGAACTTCAGTCAATTGAAGATTTAAGCCAAGATGATTCTCCGGTCAGCCGCTTTATCAA
CCAAGTATTGCTGGATGCGGTACGTAAAGGCGCATCCGACATTCATTTTGAGCCTTATGAAGCGCAATACCGCATTCGCC
TGCGCTGCGATGGTATTTTGGTGGAAACCCAACAGCCTGCCAGCCATTTAAGCCGTCGCTTAGCCGCCCGAATTAAGATT
CTCTCTAAACTGGACATTGCTGAACGCCGCTTACCACAAGATGGTCGAATCAAGCTGCGCCTTAATAGTGATACCGCGAT
TGATATGCGCGTATCAACTTTACCCACCTTGTGGGGTGAAAAAATTGTATTGCGCCTACTCGATAGCAGCGCTGCGAATC
TGGATATTGATAAGCTCGGTTATAACCCGCAGCAGAAGCAACTTTATCTCAATGCGCTCAAAAGACCGCAAGGAATGATA
TTGATGACGGGGCCGACTGGTAGCGGCAAAACCGTCTCACTCTATACTGGACTGCGCATTCTCAATACCTCGCAAATTAA
TATTTCCACCGCCGAAGATCCGGTTGAAATTAACCTCTCTGGCATTAACCAAGTCCAGGTGCAACCGAAAATCGGTTTTG
GTTTTGCCGAAGCTCTACGTTCATTTCTACGCCAAGACCCCGACGTGGTGATGGTGGGCGAAATTCGCGATTTGGAAACC
GCTGAAATTGCAGTCAAGGCGGCGCAAACGGGCCACTTGGTGCTTTCAACTTTGCATACCAACTCAGCAGCAGAAACCGT
CATTCGCTTAGCCAACATGGGGGTTGAACCCTTTAACCTCGCTTCGTCACTTAGTTTAATTATCGCCCAGCGCCTTGCTC
GCCGCTTATGTAAACACTGCAAAGTGGCGGTACATCCGTCAGCCATACTGCAAAATCAGTTTGCCTTTCAACCTCAAGAA
ATTTTGTATGAAGCGAATGCGGCAGGCTGCAACGAATGCACTGGTGGTTATTCTGGGCGAGTCGGGATCTATGAAGTCAT
GGCATTTAACACTGAACTGGCAGAGGCCATTATGCGCCGTGCCACCATTCACCAGATTGAAAGTTTAGCCAAAACCAATG
GTATGCAAACCCTGCAAGAGTCCGGCCTTGAAAAGCTGCGTGAAGGCATCACCAGTTTTGCCGAGCTGCAACGTGTACTT
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)

(38-141)


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

96.441

100

0.964
  pilB Vibrio parahaemolyticus RIMD 2210633

73.31

100

0.733
  pilB Vibrio campbellii strain DS40M4

72.954

100

0.73
  pilB Legionella pneumophila strain ERS1305867

49.189

98.754

0.486
  pilB Acinetobacter baylyi ADP1

50.579

92.171

0.466
  pilB Acinetobacter baumannii D1279779

50.289

92.349

0.464
  pilF Neisseria gonorrhoeae MS11

45.73

100

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

38.103

100

0.407
  pilF Thermus thermophilus HB27

40.111

96.263

0.386
  pilB Haemophilus influenzae 86-028NP

39.205

93.95

0.368
  pilB Haemophilus influenzae Rd KW20

38.931

93.238

0.363

Multiple sequence alignment