Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RDJ12_RS05260 Genome accession   NZ_CP133437
Coordinates   1123411..1124829 (-) Length   472 a.a.
NCBI ID   WP_261920344.1    Uniprot ID   A0A8E3MHB1
Organism   Mergibacter septicus strain 19Y0039     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1118411..1129829
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDJ12_RS05230 (RDJ12_05230) - 1118481..1119881 (-) 1401 WP_261920349.1 sodium:alanine symporter family protein -
  RDJ12_RS05235 (RDJ12_05235) - 1120251..1120523 (-) 273 WP_261920967.1 GNAT family N-acetyltransferase -
  RDJ12_RS05240 (RDJ12_05240) yacG 1120563..1120769 (-) 207 WP_261920348.1 DNA gyrase inhibitor YacG -
  RDJ12_RS05245 (RDJ12_05245) coaE 1120762..1121400 (-) 639 WP_261920347.1 dephospho-CoA kinase -
  RDJ12_RS05250 (RDJ12_05250) - 1121439..1122128 (-) 690 WP_261920346.1 prepilin peptidase -
  RDJ12_RS05255 (RDJ12_05255) - 1122170..1123396 (-) 1227 WP_261920345.1 type II secretion system F family protein -
  RDJ12_RS05260 (RDJ12_05260) pilB 1123411..1124829 (-) 1419 WP_261920344.1 GspE/PulE family protein Machinery gene
  RDJ12_RS05265 (RDJ12_05265) pilA 1124851..1125318 (-) 468 WP_261920343.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  RDJ12_RS05270 (RDJ12_05270) ampD 1125445..1126044 (+) 600 WP_373463079.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  RDJ12_RS05275 (RDJ12_05275) - 1126207..1127274 (+) 1068 WP_261920342.1 LysM-like peptidoglycan-binding domain-containing protein -
  RDJ12_RS05280 (RDJ12_05280) cgtA 1127336..1128496 (-) 1161 WP_261920341.1 Obg family GTPase CgtA -
  RDJ12_RS05285 (RDJ12_05285) - 1128540..1129472 (-) 933 WP_261920340.1 DMT family transporter -

Sequence

Protein


Download         Length: 472 a.a.        Molecular weight: 53193.85 Da        Isoelectric Point: 5.0670

>NTDB_id=874049 RDJ12_RS05260 WP_261920344.1 1123411..1124829(-) (pilB) [Mergibacter septicus strain 19Y0039]
MLYSVFEQDSQRVFTISTELWQQNQQKYPLLLRYLAVPVQEDSTTLWLAIESLNNIRGCETFSFLTGKIVEPVVIGQFGL
KQLLQALNPQNDAIYAVAKENTLYEPQSDYLSDSVELDSDEPMIKLFNQLLEQSIQHRASDIHLEPSAESYLVRFRIDGI
LQLQQQFNFSLGGRLLSRLKLLAKLDISETRLPQDGHFSFKTTFAETLELRLSTLPTQFGEKMVLRLQHNQPTTLNFTEL
GMTAAQVEMFKTALLQPQGLILVTGPTGSGKSLTLYSGLSFLNAEDKHLMTAEDPIEIPLVGVIQTQVNNPIGLTFAKLL
RTFLRQDPDVIMVGEIRDQETAEMALRAAQTGHLVLSTLHTNTARSAITRLQQLGIQQSELENTLLLVIAQRLLRKKCQN
CCHLSQTACQCTNGYTGRIGVYQFLVRQTVNQQESFISDYDSLEQAALPLLEKGITDQAEVDRVLGTQQIHY

Nucleotide


Download         Length: 1419 bp        

>NTDB_id=874049 RDJ12_RS05260 WP_261920344.1 1123411..1124829(-) (pilB) [Mergibacter septicus strain 19Y0039]
ATGTTGTATAGCGTGTTTGAGCAAGATAGCCAACGGGTCTTTACGATATCGACTGAGTTATGGCAACAGAACCAACAAAA
ATACCCATTATTACTGCGTTATTTAGCTGTACCAGTGCAAGAAGACTCAACGACTTTATGGTTAGCTATTGAATCGTTGA
ATAATATTCGTGGCTGCGAAACCTTTTCTTTTTTAACTGGAAAAATCGTTGAACCCGTAGTAATTGGGCAATTTGGTTTA
AAACAGTTATTGCAAGCATTAAATCCACAGAATGATGCAATTTATGCTGTGGCTAAGGAAAATACTTTATATGAACCACA
AAGTGATTATTTATCTGATAGTGTGGAATTGGATTCAGATGAACCAATGATCAAGTTATTTAATCAGTTGTTAGAACAGA
GTATTCAACACAGAGCATCTGATATTCATCTTGAACCAAGTGCAGAAAGTTATCTAGTACGTTTTCGGATTGATGGTATT
TTGCAGTTACAACAGCAGTTTAACTTTTCTTTGGGCGGGCGATTGCTATCTCGTCTAAAGCTATTAGCGAAGTTAGATAT
TAGTGAAACACGTTTACCACAAGATGGGCATTTTTCTTTTAAAACCACTTTTGCTGAAACCTTAGAATTGCGTCTTTCCA
CCTTACCGACTCAATTTGGTGAAAAAATGGTATTACGTTTACAGCATAATCAACCTACTACATTGAATTTTACTGAGTTA
GGTATGACGGCAGCACAAGTTGAGATGTTTAAAACTGCATTGTTACAACCACAAGGCTTAATTTTAGTAACAGGACCAAC
TGGTAGTGGTAAAAGTTTAACTTTATACAGTGGGTTAAGCTTTTTAAATGCTGAAGATAAACATTTAATGACGGCGGAAG
ATCCGATTGAAATTCCATTAGTAGGCGTAATTCAAACACAGGTAAATAATCCTATTGGATTAACCTTTGCAAAGTTATTG
CGTACCTTTTTACGGCAAGATCCTGATGTCATTATGGTTGGAGAAATTCGAGATCAAGAAACCGCTGAAATGGCATTAAG
AGCAGCACAAACAGGGCATTTAGTTTTATCGACCTTGCATACTAATACCGCCAGATCGGCGATCACACGTTTACAGCAAT
TAGGTATTCAACAAAGTGAGTTAGAAAATACGTTGTTGCTAGTAATTGCTCAACGCTTACTGCGAAAAAAATGTCAAAAT
TGTTGTCATTTATCGCAAACAGCTTGTCAGTGTACTAATGGTTATACTGGGCGAATAGGGGTATATCAATTTTTAGTTCG
CCAAACTGTTAATCAACAAGAGTCGTTTATCAGTGATTATGACAGCCTTGAACAAGCTGCACTTCCTTTATTGGAAAAAG
GCATTACTGATCAGGCAGAAGTCGATCGAGTATTAGGCACTCAACAAATTCATTACTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(129-396)


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 Haemophilus influenzae Rd KW20

57.709

96.186

0.555
  pilB Haemophilus influenzae 86-028NP

57.489

96.186

0.553
  pilB Glaesserella parasuis strain SC1401

53.747

98.941

0.532
  pilB Vibrio parahaemolyticus RIMD 2210633

40.625

100

0.413
  pilB Vibrio campbellii strain DS40M4

39.918

100

0.411
  pilB Vibrio cholerae strain A1552

39.463

100

0.405
  pilB Acinetobacter baylyi ADP1

37.6

100

0.398
  pilB Legionella pneumophila strain ERS1305867

37.172

100

0.39
  pilB Acinetobacter baumannii D1279779

37.347

100

0.388