Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LDZ26_RS11020 Genome accession   NZ_CP084260
Coordinates   2338092..2339291 (+) Length   399 a.a.
NCBI ID   WP_244847272.1    Uniprot ID   -
Organism   Caballeronia sp. SL2Y3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2333092..2344291
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDZ26_RS10990 cgtA 2333325..2334431 (-) 1107 WP_244847269.1 Obg family GTPase CgtA -
  LDZ26_RS10995 rpmA 2334634..2334897 (-) 264 WP_175945147.1 50S ribosomal protein L27 -
  LDZ26_RS11000 rplU 2334929..2335240 (-) 312 WP_008342953.1 50S ribosomal protein L21 -
  LDZ26_RS11005 - 2335476..2336468 (+) 993 WP_244847270.1 polyprenyl synthetase family protein -
  LDZ26_RS11015 - 2336727..2338013 (+) 1287 WP_244847271.1 HlyC/CorC family transporter -
  LDZ26_RS11020 pilB 2338092..2339291 (+) 1200 WP_244847272.1 GspE/PulE family protein Machinery gene
  LDZ26_RS11025 - 2339291..2340511 (+) 1221 WP_244847273.1 type II secretion system F family protein -
  LDZ26_RS11030 - 2340543..2341454 (+) 912 WP_244847274.1 A24 family peptidase -
  LDZ26_RS11035 coaE 2341471..2342088 (+) 618 WP_244847275.1 dephospho-CoA kinase -
  LDZ26_RS11040 zapD 2342248..2343003 (+) 756 WP_175945315.1 cell division protein ZapD -
  LDZ26_RS11045 - 2343073..2343264 (+) 192 WP_244847276.1 DNA gyrase inhibitor YacG -
  LDZ26_RS11050 - 2343271..2343720 (-) 450 WP_255774820.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 399 a.a.        Molecular weight: 42682.07 Da        Isoelectric Point: 7.7564

>NTDB_id=610366 LDZ26_RS11020 WP_244847272.1 2338092..2339291(+) (pilB) [Caballeronia sp. SL2Y3]
MKSVPPAAFPRPADPAFEATSDAHSPAVSLLADTLREAAERGASDIHVEPSEHEWRIRLRVDGALHLLRRPPPHLRDAFV
TRIKVLARMDIAERRVPQDGRLRLALPGGQSGDYRVSSLPTLFGEKLVLRRLDALPRDLSLGALGLSDEQSGVVESAIRA
PHGLVLVTGPTGSGKTLSLYCFLQMLNAEARNICAVEDPAEIQLAGINQVSVREKAGLTFAVALRAFMRQDPDVIMVGEI
RDAETADVAVKAAQTGHLVLSTLHTNDAPAAIARLIDIGVAPYNLASALRLVTAQRLVRKLCDACRAPSALTLADGFRPF
EPRGCPACHGIGYRGRVGVHQLMPVSDGIRELIVGRAATHAVARLAQSEGMPALRDAAFARVREGVTSVAEATDATEIA

Nucleotide


Download         Length: 1200 bp        

>NTDB_id=610366 LDZ26_RS11020 WP_244847272.1 2338092..2339291(+) (pilB) [Caballeronia sp. SL2Y3]
ATGAAGTCCGTTCCTCCCGCCGCGTTCCCACGCCCGGCCGACCCCGCCTTCGAGGCAACGTCCGACGCTCACTCGCCCGC
CGTTTCGCTGCTCGCCGACACCTTGCGCGAAGCCGCCGAGCGCGGCGCGTCCGATATTCACGTCGAACCGTCCGAGCACG
AATGGCGCATCCGGCTGCGCGTGGATGGCGCGTTGCATCTTCTGCGCCGTCCGCCGCCGCATTTGCGTGATGCCTTCGTC
ACGCGAATCAAAGTGCTCGCGCGCATGGATATCGCGGAACGTCGCGTGCCGCAGGACGGACGTCTACGGCTCGCCTTGCC
GGGCGGCCAGAGCGGCGACTATCGCGTGAGTTCACTGCCGACGCTCTTCGGCGAGAAGCTGGTCCTGCGCCGGCTCGATG
CCTTGCCGCGCGACCTGTCGCTCGGTGCGCTCGGCCTAAGCGACGAACAAAGCGGCGTCGTCGAATCCGCCATTCGCGCG
CCGCATGGCCTCGTGCTCGTCACGGGTCCGACCGGCAGCGGCAAGACGCTGTCGCTGTACTGTTTCCTTCAGATGCTCAA
CGCCGAAGCGCGCAACATCTGCGCCGTGGAAGACCCCGCCGAAATCCAGCTTGCGGGCATCAATCAGGTCAGCGTGCGCG
AGAAGGCCGGCCTCACCTTCGCCGTCGCGCTGCGTGCGTTCATGCGGCAGGACCCGGACGTCATCATGGTCGGCGAGATT
CGCGACGCCGAAACCGCCGACGTCGCCGTGAAAGCCGCGCAGACCGGCCACCTCGTCCTCTCGACGCTCCACACCAACGA
CGCGCCCGCCGCCATCGCGCGCCTGATCGACATTGGCGTCGCGCCGTACAACCTCGCGTCGGCGCTGCGGCTCGTGACGG
CGCAACGGCTCGTGCGCAAGCTCTGCGACGCTTGCCGCGCGCCGTCCGCGCTGACGCTCGCCGACGGCTTTCGTCCCTTC
GAGCCGCGTGGCTGCCCGGCGTGTCACGGCATCGGATATCGCGGGCGCGTCGGCGTGCATCAGTTGATGCCGGTGTCGGA
CGGCATTCGCGAGTTGATCGTCGGCCGCGCGGCGACGCACGCCGTTGCGCGGCTCGCGCAGTCCGAGGGCATGCCCGCCT
TGCGCGACGCCGCTTTCGCACGCGTGCGCGAAGGCGTGACGAGCGTCGCGGAAGCAACCGACGCGACGGAGATCGCGTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(34-300)


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

50.259

96.742

0.486
  pilF Neisseria gonorrhoeae MS11

49.354

96.992

0.479
  pilB Acinetobacter baumannii D1279779

47.328

98.496

0.466
  pilB Vibrio campbellii strain DS40M4

48.177

96.241

0.464
  pilB Acinetobacter baylyi ADP1

47.927

96.742

0.464
  pilB Vibrio parahaemolyticus RIMD 2210633

47.917

96.241

0.461
  pilB Legionella pneumophila strain ERS1305867

45.96

99.248

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

44.039

100

0.454
  pilB Haemophilus influenzae Rd KW20

40.759

98.997

0.404
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.451

96.742

0.401
  pilF Thermus thermophilus HB27

41.842

95.238

0.398
  pilB Haemophilus influenzae 86-028NP

40.253

98.997

0.398
  pilB Glaesserella parasuis strain SC1401

41.509

92.982

0.386