Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OFO16_RS12230 Genome accession   NZ_CP107282
Coordinates   2678351..2680036 (+) Length   561 a.a.
NCBI ID   WP_263837433.1    Uniprot ID   -
Organism   Vibrio natriegens strain PWH3a     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2673351..2685036
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OFO16_RS12210 (OFO16_12210) pdhR 2674899..2675666 (-) 768 WP_014232947.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  OFO16_RS12215 (OFO16_12215) ampD 2676076..2676621 (-) 546 WP_263837430.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  OFO16_RS12220 (OFO16_12220) nadC 2676714..2677601 (+) 888 WP_263837431.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OFO16_RS12225 (OFO16_12225) - 2677860..2678348 (+) 489 WP_263837432.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OFO16_RS12230 (OFO16_12230) pilB 2678351..2680036 (+) 1686 WP_263837433.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OFO16_RS12235 (OFO16_12235) pilC 2680067..2681290 (+) 1224 WP_263837434.1 type II secretion system F family protein Machinery gene
  OFO16_RS12240 (OFO16_12240) pilD 2681358..2682227 (+) 870 WP_263837435.1 A24 family peptidase Machinery gene
  OFO16_RS12245 (OFO16_12245) coaE 2682228..2682842 (+) 615 WP_014232954.1 dephospho-CoA kinase -
  OFO16_RS12250 (OFO16_12250) zapD 2682869..2683609 (+) 741 WP_020333952.1 cell division protein ZapD -
  OFO16_RS12255 (OFO16_12255) yacG 2683683..2683877 (+) 195 WP_263837436.1 DNA gyrase inhibitor YacG -
  OFO16_RS12260 (OFO16_12260) rplS 2684385..2684738 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62133.09 Da        Isoelectric Point: 6.0711

>NTDB_id=739270 OFO16_RS12230 WP_263837433.1 2678351..2680036(+) (pilB) [Vibrio natriegens strain PWH3a]
MLTKLSTILLQAGLLDLHQEESLIEQVNASGISMPEALVSAGIFNSSELTAHLSSIFGIPCEPLSNYDYTALCQKLRLRE
LITSHHTLPLERTPSTLTLATADPTNQQAEDDFRFATGLQVDLVIADFAELDAAIRRLYGRALGQERSGLKDINQEELAN
LVDVGADEVDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRMPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLAALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLTNMGVESYNLASSLSLIIAQRLARKLCPHCKRPQEVTTALQHIGIQATDQ
IYQANPNGCNHCTHGYSGRTGIYEVMRFDENLSEALIKGAFVHQLEKLAIRNGMSTLQMSGIKKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=739270 OFO16_RS12230 WP_263837433.1 2678351..2680036(+) (pilB) [Vibrio natriegens strain PWH3a]
ATGCTAACCAAACTCTCAACAATTCTTCTTCAAGCGGGATTACTCGATTTACACCAAGAAGAATCGTTAATAGAGCAAGT
CAACGCTTCTGGTATTTCGATGCCGGAAGCGTTAGTGAGTGCGGGGATATTCAACTCTAGCGAACTCACTGCTCACCTTA
GTTCAATCTTTGGTATACCCTGCGAGCCATTATCAAACTATGATTACACCGCCCTGTGCCAGAAATTGAGGCTACGTGAG
CTGATCACCAGTCACCATACATTGCCATTAGAGCGAACGCCTTCGACGTTAACTCTGGCCACTGCCGACCCAACGAACCA
ACAAGCTGAAGATGATTTTCGCTTTGCTACCGGATTACAAGTCGACTTAGTTATCGCTGATTTTGCGGAGCTTGACGCTG
CGATTCGCCGTTTGTACGGCCGCGCGTTAGGTCAGGAAAGATCCGGCTTAAAAGATATAAATCAAGAAGAGCTCGCCAAC
CTTGTCGACGTTGGCGCAGATGAAGTCGATAACATCGAAGACTTAAGTCAGGACGAGTCACCGGTTAGTCGCTATATCAA
CCAAATTTTACTTGATGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCCTATGAAAAAATGTACCGAGTTCGGC
TGCGTTGCGACGGTATTCTGATTGAGACTCAACAGCCGCCAAACCATTTAAGTCGACGCTTATCTGCCCGAATTAAAATT
CTATCAAAGCTCGATATTGCCGAAAGGCGTATGCCGCAAGACGGTCGAATAAAGTTAAAGCTTAATCAAGACACTGCGAT
TGATATGCGAGTGTCCACCTTACCCACTCTATTTGGAGAAAAAATCGTATTGCGACTGCTCGACAGCAGCTCCGCATCTC
TGGATATCGACAAACTTGGTTACAGCGAACAGCAAAAACAGTTGTACTTAGCTGCTCTGCGTCGACCTCAGGGCATGATT
TTAATGACTGGCCCGACTGGCAGCGGAAAAACCGTCTCGCTCTACACTGGGCTGAGTATTCTGAATAAACCAGAGATCAA
TATATCTACGGCGGAAGACCCGGTCGAAATCAACCTATCCGGAATTAATCAGGTTCAGGTTCAGCCCAAAATTGGCTTTG
GTTTCGCTGAGGCACTGCGCTCTTTCCTGCGTCAAGACCCTGATGTGGTCATGGTGGGAGAAATCCGTGACCTGGACACA
GCAGAAATCGCGATTAAGGCCTCACAAACCGGACACTTAGTCTTGTCGACACTCCACACAAATTCAGCCGCTGAAACCGT
TATCCGCCTAACGAATATGGGTGTTGAAAGCTACAACCTCGCCTCTTCGCTCAGCCTTATTATTGCCCAGCGCTTAGCCC
GTAAACTTTGCCCGCACTGTAAACGGCCTCAAGAGGTTACCACCGCATTACAACATATCGGCATTCAAGCAACTGACCAG
ATTTATCAAGCCAACCCAAATGGCTGTAACCACTGTACACACGGCTATTCGGGAAGAACTGGCATCTATGAGGTGATGCG
TTTCGATGAAAACCTATCCGAAGCACTGATTAAAGGTGCCTTTGTACATCAACTCGAAAAACTCGCCATCCGTAACGGGA
TGAGCACACTACAAATGTCAGGTATTAAAAAGCTTAAGCAAGGCGTCACAAGCTTTAGCGAACTGCAGCGCGTGCTCTAC
TTTTAA

Domains

Predicted by InterproScan.

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

(38-142)

Type II/IV secretion system protein (T2SSE)

(188-455)


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 parahaemolyticus RIMD 2210633

87.879

100

0.879
  pilB Vibrio campbellii strain DS40M4

85.027

100

0.85
  pilB Vibrio cholerae strain A1552

71.708

100

0.718
  pilB Acinetobacter baylyi ADP1

51.81

93.583

0.485
  pilB Acinetobacter baumannii D1279779

51.331

93.761

0.481
  pilB Legionella pneumophila strain ERS1305867

47.359

100

0.479
  pilF Neisseria gonorrhoeae MS11

43.993

100

0.444
  pilB/pilB1 Synechocystis sp. PCC 6803

35.738

100

0.389
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.143

99.822

0.371