Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   N5O86_RS05875 Genome accession   NZ_CP104581
Coordinates   1296118..1297860 (-) Length   580 a.a.
NCBI ID   WP_016445611.1    Uniprot ID   A0A7T2YYZ7
Organism   Delftia tsuruhatensis strain GD03927     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1291118..1302860
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N5O86_RS05845 (N5O86_05845) - 1291700..1292206 (+) 507 WP_016445605.1 NUDIX domain-containing protein -
  N5O86_RS05850 (N5O86_05850) - 1292217..1292453 (-) 237 WP_223275109.1 DNA gyrase inhibitor YacG -
  N5O86_RS05855 (N5O86_05855) zapD 1292471..1293226 (-) 756 WP_016445607.1 cell division protein ZapD -
  N5O86_RS05860 (N5O86_05860) coaE 1293316..1293954 (-) 639 WP_250438418.1 dephospho-CoA kinase -
  N5O86_RS05865 (N5O86_05865) pilD 1293969..1294862 (-) 894 WP_016445609.1 A24 family peptidase Machinery gene
  N5O86_RS05870 (N5O86_05870) pilC 1294862..1296079 (-) 1218 WP_016445610.1 type II secretion system F family protein Machinery gene
  N5O86_RS05875 (N5O86_05875) pilB 1296118..1297860 (-) 1743 WP_016445611.1 type IV-A pilus assembly ATPase PilB Machinery gene
  N5O86_RS05885 (N5O86_05885) - 1298097..1299026 (-) 930 WP_016451025.1 polyprenyl synthetase family protein -
  N5O86_RS05890 (N5O86_05890) rplU 1299257..1299568 (+) 312 WP_012207284.1 50S ribosomal protein L21 -
  N5O86_RS05895 (N5O86_05895) rpmA 1299584..1299841 (+) 258 WP_012207283.1 50S ribosomal protein L27 -
  N5O86_RS05900 (N5O86_05900) cgtA 1299991..1301106 (+) 1116 WP_046987498.1 Obg family GTPase CgtA -
  N5O86_RS05905 (N5O86_05905) proB 1301190..1302338 (+) 1149 WP_016445651.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 580 a.a.        Molecular weight: 62777.81 Da        Isoelectric Point: 5.1481

>NTDB_id=730680 N5O86_RS05875 WP_016445611.1 1296118..1297860(-) (pilB) [Delftia tsuruhatensis strain GD03927]
MAVADSSLKNASAVASLPGIGRALISAGKVSQQAAEAAAGKAATNRTSFIAELSVAGTLSALEVAETVSTMFSAPLLDLD
AVDAMRLPQDLLDSKIISTYRVLPLSKRGNRLTVATADPTQQEAAEQIKFTTQLGVDWIIVEADKLERLIAQQNKSASEA
MDSYGGSGDFEFGDLKPDEVAEEKDNSAAADVEDAPIVKFLHKMLLDAFNMRASDLHFEPYEHQYRVRFRIDGELREIAS
PPIAIKEKLASRIKVISRMDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSARMGIDALGYEPEE
KARLLEAISRPYGMILVTGPTGSGKTVSLYTCLNLLNKAGVNIATAEDPSEINLPGVNQVNVNEKAGLTFATALKAFLRQ
DPDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCPQCKEPAD
IPREALIDAGYDDADIDGSWVTYRPVGCPACNNGYKGRVGIYQVMPISEEIQRIILQDGSALEIAAQAKREGVRSLRGSG
LHKARQGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1743 bp        

>NTDB_id=730680 N5O86_RS05875 WP_016445611.1 1296118..1297860(-) (pilB) [Delftia tsuruhatensis strain GD03927]
ATGGCTGTTGCTGACTCCTCGCTCAAGAATGCATCCGCTGTCGCATCGCTTCCCGGCATCGGGCGGGCCCTGATTTCAGC
AGGCAAGGTATCGCAACAGGCAGCGGAAGCGGCTGCCGGCAAGGCCGCCACCAATCGCACCTCGTTCATTGCAGAACTGA
GCGTCGCCGGCACCCTCTCTGCCCTGGAAGTGGCGGAGACGGTTTCCACCATGTTCAGCGCGCCGCTGCTCGATCTTGAT
GCGGTCGACGCCATGCGCCTGCCGCAGGATCTGCTGGACTCCAAGATCATCAGCACCTATCGCGTCCTGCCTCTGAGCAA
GCGCGGCAACCGCCTCACGGTGGCCACCGCCGACCCGACGCAGCAGGAAGCCGCCGAGCAGATCAAGTTCACCACCCAGT
TGGGCGTGGACTGGATCATCGTCGAAGCCGACAAGCTGGAGCGACTGATCGCGCAGCAGAACAAAAGCGCCAGCGAGGCC
ATGGACAGCTATGGCGGCAGCGGCGACTTCGAGTTCGGCGACCTCAAGCCTGATGAGGTTGCAGAGGAAAAGGACAACTC
GGCCGCAGCAGACGTCGAAGATGCGCCCATCGTCAAGTTCCTGCACAAAATGCTGCTCGACGCCTTCAACATGCGCGCGT
CGGACTTGCATTTCGAACCCTACGAGCACCAGTACCGCGTGCGCTTTCGCATTGACGGCGAGCTGCGTGAAATTGCATCG
CCGCCCATTGCCATCAAGGAGAAGCTGGCCTCGCGCATCAAGGTGATCTCGCGCATGGACATCTCGGAAAAGCGTGTCCC
GCAGGACGGGCGCATGAAGCTCAAGGTCGGCCCGGACCGCGTCATCGACTTTCGCGTCAGCACGCTGCCCACGCTTTTCG
GCGAGAAGATCGTGATCCGTATCCTGGACCCGAGCTCGGCCAGGATGGGCATCGACGCCCTGGGCTATGAACCCGAGGAG
AAGGCACGCCTGCTTGAAGCCATCAGCCGCCCTTACGGAATGATTCTGGTCACAGGCCCCACCGGCTCGGGCAAGACAGT
GTCGCTGTACACCTGCCTGAACCTGCTGAACAAGGCCGGCGTGAACATCGCCACGGCGGAAGATCCTTCGGAAATCAACC
TGCCCGGCGTCAACCAGGTCAATGTGAACGAAAAGGCCGGCCTCACCTTTGCCACTGCGCTCAAGGCTTTTCTGCGCCAG
GATCCCGACATCATCATGGTCGGTGAAATCCGCGATCTGGAAACGGCCGACATCTCGATCAAGGCAGCGCAAACCGGCCA
CTTGGTGCTGTCCACCCTGCACACCAATGACGCACCGACCACGTTGACGCGCATGCGCAACATGGGCATTGCGCCCTTCA
ACATCGCATCGAGCGTGATCCTGATCACCGCCCAGCGCCTGGCCAGGCGCCTGTGCCCTCAATGCAAGGAGCCGGCTGAC
ATTCCGCGGGAGGCCCTGATCGATGCAGGCTACGACGATGCGGACATTGACGGCAGCTGGGTCACCTACAGGCCCGTCGG
CTGTCCGGCATGCAACAACGGCTACAAGGGCCGCGTAGGCATCTATCAGGTGATGCCTATCAGCGAGGAAATCCAGCGCA
TCATCCTGCAGGACGGCAGTGCACTGGAGATCGCCGCACAGGCCAAGCGCGAAGGCGTGCGGTCGCTGCGTGGATCGGGT
TTGCACAAGGCCAGACAGGGACTGACCTCGCTCGAAGAAGTGCTGGCAGTCACCAATGAGTAA

Domains

Predicted by InterproScan.

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

(57-153)

Type II/IV secretion system protein (T2SSE)

(203-470)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A7T2YYZ7

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 Acinetobacter baumannii D1279779

56.206

97.241

0.547
  pilB Acinetobacter baylyi ADP1

55.712

98.103

0.547
  pilF Neisseria gonorrhoeae MS11

52.12

97.586

0.509
  pilB Legionella pneumophila strain ERS1305867

49.736

98.103

0.488
  pilB Vibrio cholerae strain A1552

46.679

96.034

0.448
  pilB Vibrio campbellii strain DS40M4

44.248

97.414

0.431
  pilB Vibrio parahaemolyticus RIMD 2210633

47.036

90.172

0.424
  pilF Thermus thermophilus HB27

38.889

99.31

0.386
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

43.21

83.793

0.362