Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   J4N38_RS13390 Genome accession   NZ_CP071857
Coordinates   2853124..2854773 (+) Length   549 a.a.
NCBI ID   WP_252035356.1    Uniprot ID   -
Organism   Vibrio sp. SCSIO 43145     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2848124..2859773
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J4N38_RS13360 (J4N38_13280) dsbC 2848433..2849185 (-) 753 WP_252035352.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -
  J4N38_RS13365 (J4N38_13285) xerD 2849226..2850122 (-) 897 WP_252036648.1 site-specific tyrosine recombinase XerD -
  J4N38_RS13370 (J4N38_13290) fldB 2850286..2850807 (+) 522 WP_239865423.1 flavodoxin FldB -
  J4N38_RS13375 (J4N38_13295) ampD 2850896..2851441 (-) 546 WP_252035353.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  J4N38_RS13380 (J4N38_13300) nadC 2851573..2852460 (+) 888 WP_252035354.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J4N38_RS13385 (J4N38_13305) - 2852684..2853124 (+) 441 WP_252035355.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  J4N38_RS13390 (J4N38_13310) pilB 2853124..2854773 (+) 1650 WP_252035356.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J4N38_RS13395 (J4N38_13315) - 2854783..2856018 (+) 1236 WP_252035357.1 type II secretion system F family protein -
  J4N38_RS13400 (J4N38_13320) pilD 2856068..2856937 (+) 870 WP_252035358.1 A24 family peptidase Machinery gene
  J4N38_RS13405 (J4N38_13325) coaE 2856939..2857547 (+) 609 WP_252035359.1 dephospho-CoA kinase -
  J4N38_RS13410 (J4N38_13330) zapD 2857581..2858321 (+) 741 WP_252035360.1 cell division protein ZapD -
  J4N38_RS13415 (J4N38_13335) yacG 2858374..2858565 (+) 192 WP_252035361.1 DNA gyrase inhibitor YacG -
  J4N38_RS13420 (J4N38_13340) rplS 2858697..2859050 (-) 354 WP_045977783.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 549 a.a.        Molecular weight: 61252.36 Da        Isoelectric Point: 6.6803

>NTDB_id=548466 J4N38_RS13390 WP_252035356.1 2853124..2854773(+) (pilB) [Vibrio sp. SCSIO 43145]
MMSQLPHLLQRANKITQAQALHAMAAMNTQKADACTALLTLDDISPQKLVTMISELFSLTIIQLDSFDYISCCQRLGVSD
LVCRHSALPLHIDSHQLTLAISDPSIAEIEQDFRFATGLKVKLVLCQIHILMEAIHHLYGDKFSGERFGFKAISDQELEQ
LVETTEEESADHEALYQDTSPISQYIHQVLLDAVRKRASDIHFEPYENWFRVRFRCDGLLIERQQPPHHLSNRLIARLKI
LAKLDIAERRLPQDGRITLAIASSKAIDIRVSTLPTIWGEKVVLRLLDNRKTSFDLEHLGYSPSQSEHYRRALAKPQGMI
LITGPTGSGKTLSLYSGLNILNQSEVNIATAEDPVEMHVSGINQVQIQPQIGFHFAQALRAFLRQDPDVVMVGEIRDRET
AEIAAKAAQTGHLVLSTLHTNSAAEAILRLQNLGIEPFNIAASLSLIVAQRLVRRLCPHCKRPDSEKIQEFKADPLGCSS
CHQGYSGRIGLFEILTVTPEISEAIAARAPTHHIESLAIEQGMQTLRQSGIEKLTQGVTSQTELQRVLL

Nucleotide


Download         Length: 1650 bp        

>NTDB_id=548466 J4N38_RS13390 WP_252035356.1 2853124..2854773(+) (pilB) [Vibrio sp. SCSIO 43145]
ATGATGAGCCAATTACCTCACTTACTACAGAGAGCGAACAAAATAACTCAAGCTCAAGCCTTACATGCCATGGCGGCAAT
GAATACCCAGAAAGCGGATGCCTGTACTGCACTGCTCACTCTCGACGATATATCACCACAAAAACTGGTCACAATGATCA
GTGAACTCTTCTCCCTCACCATCATTCAGCTAGACTCATTTGATTATATCTCGTGCTGTCAGCGCCTAGGAGTTAGCGAT
TTAGTTTGCCGACATTCAGCGCTGCCCCTTCATATAGATAGTCACCAATTGACCTTAGCGATCAGTGACCCATCGATTGC
AGAAATTGAACAAGACTTTCGCTTTGCCACAGGTCTAAAAGTCAAGTTAGTACTCTGTCAGATCCATATTTTGATGGAGG
CGATACACCACTTATATGGTGATAAATTTTCAGGTGAGAGGTTTGGTTTTAAAGCAATCAGCGATCAAGAGCTTGAGCAG
CTGGTCGAGACCACTGAAGAAGAAAGTGCGGATCATGAAGCCCTCTATCAAGATACTTCACCTATTAGCCAGTACATACA
TCAAGTACTGCTAGACGCCGTGCGCAAACGTGCCTCTGATATCCATTTTGAGCCTTATGAAAACTGGTTCCGTGTTCGAT
TCAGGTGTGATGGCTTACTGATTGAAAGACAACAGCCCCCTCACCACCTATCTAATCGTTTAATTGCTCGGCTCAAAATA
TTAGCTAAGCTCGACATTGCAGAACGTCGCCTACCACAAGATGGCAGAATCACCTTAGCGATCGCATCCTCAAAGGCCAT
CGATATACGTGTCTCGACTTTACCGACCATATGGGGAGAAAAAGTCGTATTGCGGCTGCTCGATAACCGGAAAACCAGCT
TCGATTTAGAGCATTTAGGCTATAGCCCATCACAAAGTGAGCACTATCGTAGAGCGTTAGCTAAACCTCAGGGAATGATC
CTAATCACAGGCCCAACAGGCAGTGGCAAGACGTTGTCGTTATACAGTGGCCTGAATATTCTCAATCAAAGTGAAGTCAA
TATTGCGACAGCAGAGGATCCTGTTGAAATGCATGTATCGGGAATCAATCAGGTTCAAATCCAACCCCAAATTGGGTTTC
ATTTTGCTCAAGCTCTTCGAGCTTTTTTACGCCAAGATCCTGATGTTGTTATGGTCGGAGAAATACGAGACCGTGAAACA
GCGGAAATCGCAGCCAAAGCAGCGCAGACCGGGCATTTAGTGCTTTCAACTCTGCACACTAACTCGGCTGCAGAAGCCAT
TCTACGTTTACAAAACCTGGGCATCGAACCTTTCAATATCGCGGCTTCTTTAAGTCTTATCGTTGCACAAAGGTTAGTCA
GGCGTCTGTGCCCTCACTGTAAACGTCCAGACTCAGAAAAAATTCAGGAATTCAAAGCTGACCCATTAGGCTGCAGTTCA
TGCCATCAAGGTTATTCGGGACGAATCGGACTGTTTGAAATTCTTACCGTCACTCCAGAAATATCAGAAGCGATTGCTGC
CAGAGCGCCAACCCACCACATTGAAAGCTTGGCGATCGAGCAGGGGATGCAGACTCTGCGCCAATCTGGAATTGAGAAGC
TTACGCAAGGGGTAACCAGTCAAACAGAACTACAGCGGGTGCTACTCTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(40-141)


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

56.506

100

0.577
  pilB Vibrio parahaemolyticus RIMD 2210633

56.708

100

0.577
  pilB Vibrio cholerae strain A1552

56.071

100

0.572
  pilB Acinetobacter baumannii D1279779

45.208

100

0.455
  pilB Legionella pneumophila strain ERS1305867

44.727

100

0.448
  pilB Acinetobacter baylyi ADP1

45.131

97.268

0.439
  pilF Neisseria gonorrhoeae MS11

41.811

94.536

0.395
  pilF Thermus thermophilus HB27

41.803

88.889

0.372