Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AYJ58_RS04890 Genome accession   NZ_CP015194
Coordinates   1094312..1096024 (-) Length   570 a.a.
NCBI ID   WP_106649217.1    Uniprot ID   -
Organism   Shewanella sp. Pdp11     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1089312..1101024
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AYJ58_RS04860 (AYJ58_04775) mutT 1089785..1090177 (-) 393 WP_106649213.1 8-oxo-dGTP diphosphatase MutT -
  AYJ58_RS04865 (AYJ58_04780) yacG 1090257..1090466 (-) 210 WP_006083355.1 DNA gyrase inhibitor YacG -
  AYJ58_RS04870 (AYJ58_04785) zapD 1090540..1091274 (-) 735 WP_106649214.1 cell division protein ZapD -
  AYJ58_RS04875 (AYJ58_04790) coaE 1091267..1091884 (-) 618 WP_063884698.1 dephospho-CoA kinase -
  AYJ58_RS04880 (AYJ58_04795) pilD 1091924..1092850 (-) 927 WP_106649215.1 A24 family peptidase Machinery gene
  AYJ58_RS04885 (AYJ58_04800) pilC 1092890..1094161 (-) 1272 WP_106649216.1 type II secretion system F family protein Machinery gene
  AYJ58_RS04890 (AYJ58_04805) pilB 1094312..1096024 (-) 1713 WP_106649217.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AYJ58_RS21865 (AYJ58_04810) - 1096749..1097927 (+) 1179 WP_198555596.1 O-antigen ligase family protein -
  AYJ58_RS22110 (AYJ58_04815) - 1097975..1098412 (-) 438 WP_106649219.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  AYJ58_RS04905 (AYJ58_04820) nadC 1099104..1099991 (-) 888 WP_106649220.1 carboxylating nicotinate-nucleotide diphosphorylase -
  AYJ58_RS04910 (AYJ58_04825) ampD 1100251..1100814 (+) 564 WP_106649221.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 570 a.a.        Molecular weight: 62864.26 Da        Isoelectric Point: 6.1233

>NTDB_id=177388 AYJ58_RS04890 WP_106649217.1 1094312..1096024(-) (pilB) [Shewanella sp. Pdp11]
MPSTGLHLGLSTLFIRKGLLNEEQMANAITKSRQNKHALVSTLVQSKLISARAIAELCYEEYGTPLLDLNEFDLASIPED
FLNKKLIEKHRCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEEDKLAKALEKILEEDISGLDLGGMDDAA
LAAIEITDTDRRSEESTGESSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQAEVIPEHELLRLGF
DQTQITQGFTTFKPVGCEHCSAGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIASQAKAQGMRDLRQSGLLKVIHGVTSI
AEVNRVTSFG

Nucleotide


Download         Length: 1713 bp        

>NTDB_id=177388 AYJ58_RS04890 WP_106649217.1 1094312..1096024(-) (pilB) [Shewanella sp. Pdp11]
ATGCCATCTACAGGCCTTCACTTAGGGCTGTCGACCCTTTTTATCCGCAAAGGTCTGCTAAATGAAGAGCAGATGGCTAA
CGCTATCACTAAATCTCGACAAAACAAACACGCCCTCGTAAGCACTTTAGTTCAAAGTAAGCTAATCTCTGCCCGTGCAA
TAGCTGAGCTTTGCTACGAAGAGTACGGAACGCCACTACTCGATCTCAATGAGTTTGATCTTGCTTCCATCCCTGAGGAC
TTCCTCAATAAAAAACTGATTGAGAAACACCGCTGCTTGCCCTTATTTAAACGTGGGAATCGCCTCTATATAGGCACATC
CGACCCAACCAATATTGCCGCCCTCGAAGATTTTCAGTTTAGTGCAGGCCTGCACGCCGAAGCGATTCTAGTTGAGGAAG
ATAAGCTCGCTAAAGCGCTAGAGAAAATTCTCGAAGAAGATATCAGTGGTCTCGATTTAGGCGGTATGGACGATGCTGCG
CTTGCAGCGATAGAAATTACTGATACCGACAGACGTAGCGAAGAGTCTACAGGTGAGAGTAGTGACGATGCGCCTATCGT
TATTTATATCAATAAAATTTTAACCGATGCGATTCGCAAGGGTGCGTCAGATTTGCACTTTGAACCCTATGAAAAGCGCT
ACCGTATTCGTTTTCGTATAGATGGTATTCTGCACGAAGTCTCTGAGCCGCCGATTAGTCTGGCTGGTCGTCTTTCTGCA
CGCCTAAAAGTGATGTCGAAACTCGATATCGCCGAACGGCGCGTGCCACAAGATGGTCGAATTAAGATGAAACTATCCCG
CACTAAGTCTATCGACTTTCGGGTTAGTACTCTGCCGACCCTGTGGGGTGAAAAGATTGTAATGCGGATTTTAGACTCAT
CCTCCGCACAATTAGGCATTGAAAAGCTCGGCTACGAGCCAGACCAAGAAAAGCTCTACCTTGAGATGCTAGCAAAACCC
CAAGGGATGATTTTAGTAACGGGCCCAACGGGTTCAGGTAAGACCGTCTCCCTTTACACAGGGTTAAATATTCTCAATAC
CGAAGAGCGTAATATATCTACCGCCGAAGATCCGGTGGAGATTAACCTCGAAGGCGTGAACCAAGTTCACATTAATTTAA
AGGCAGGCCTCACCTTCGCCTCCGCACTGCGTTCGTTCTTACGCCAAGATCCCGATGTGGTGATGGTGGGTGAAATCCGC
GATCTGGAAACCGCCGAAATTGCCATTAAAGCGGCGCAAACGGGTCACTTAGTCTTATCGACCTTACACACTAACTCGGC
GGCCGAAACCTTAACCCGTTTAATCAACATGGGGGTTCCTGGCTACAATATCGCTAGTTCAGTAAACCTGATTATTGCAC
AGCGCTTAGCCCGCCGCCTCTGCCCCGAATGTAAGCAAGCAGAAGTGATCCCCGAGCATGAATTACTGCGCCTAGGTTTT
GACCAAACACAAATTACTCAAGGCTTTACCACCTTTAAACCTGTTGGCTGCGAGCATTGCTCTGCAGGCTACAAAGGCCG
GGTCGGTATTTACGAAGTAATGAAGATGTCCGATGAAATCGCGCGCACTATTATGGAAGGCGGTAACTCATTACAAATCG
CCTCCCAAGCTAAAGCGCAAGGTATGCGAGATTTGCGTCAATCAGGATTATTAAAAGTGATCCACGGTGTAACGAGTATT
GCTGAAGTCAACCGAGTAACCAGTTTTGGCTAA

Domains

Predicted by InterproScan.

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

(43-144)

Type II/IV secretion system protein (T2SSE)

(192-459)


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 Acinetobacter baylyi ADP1

59.537

98.421

0.586
  pilB Acinetobacter baumannii D1279779

58.899

95.614

0.563
  pilB Legionella pneumophila strain ERS1305867

56.05

98.596

0.553
  pilB Vibrio cholerae strain A1552

53.153

97.368

0.518
  pilB Vibrio parahaemolyticus RIMD 2210633

51.494

99.825

0.514
  pilB Vibrio campbellii strain DS40M4

51.15

99.123

0.507
  pilF Neisseria gonorrhoeae MS11

47.35

99.298

0.47
  pilF Thermus thermophilus HB27

38.693

99.298

0.384
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.71

97.895

0.379

Multiple sequence alignment