Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JIO00_RS25025 Genome accession   NZ_CP067098
Coordinates   5539048..5540748 (+) Length   566 a.a.
NCBI ID   WP_200667028.1    Uniprot ID   -
Organism   Pseudomonas sp. SW-3     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5534048..5545748
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JIO00_RS25005 (JIO00_25005) - 5534213..5537167 (+) 2955 WP_200667026.1 DUF748 domain-containing protein -
  JIO00_RS25010 (JIO00_25010) - 5537167..5537463 (+) 297 WP_154501766.1 DUF2845 domain-containing protein -
  JIO00_RS25015 (JIO00_25015) - 5537749..5538102 (-) 354 WP_010467586.1 BON domain-containing protein -
  JIO00_RS25020 (JIO00_25020) pilA 5538415..5538822 (-) 408 WP_010467585.1 pilin Machinery gene
  JIO00_RS25025 (JIO00_25025) pilB 5539048..5540748 (+) 1701 WP_200667028.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JIO00_RS25030 (JIO00_25030) pilC 5540751..5541968 (+) 1218 WP_010467583.1 type II secretion system F family protein Machinery gene
  JIO00_RS25035 (JIO00_25035) pilD 5541970..5542842 (+) 873 WP_145308756.1 A24 family peptidase Machinery gene
  JIO00_RS25040 (JIO00_25040) coaE 5542839..5543462 (+) 624 WP_042932554.1 dephospho-CoA kinase -
  JIO00_RS25045 (JIO00_25045) yacG 5543459..5543659 (+) 201 WP_010467579.1 DNA gyrase inhibitor YacG -
  JIO00_RS25050 (JIO00_25050) - 5543663..5543878 (-) 216 WP_010467577.1 hypothetical protein -
  JIO00_RS25055 (JIO00_25055) - 5543942..5544631 (-) 690 WP_083375730.1 energy-coupling factor ABC transporter permease -
  JIO00_RS25060 (JIO00_25060) - 5544628..5545095 (-) 468 WP_010467572.1 hypothetical protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62606.79 Da        Isoelectric Point: 5.9761

>NTDB_id=525030 JIO00_RS25025 WP_200667028.1 5539048..5540748(+) (pilB) [Pseudomonas sp. SW-3]
MNDIALSGLAKQLVMAELLTEQSAQQAYLHAQRSKISLVSYLVQNKLVKSRQVAEIASEHFGMALLDLNCLDKEAQPRGL
VSEKLIRQHHALPLWRRGNKLFVGVSDPTNHQAINDIQFSTGLNTEAILVEDDKLGDAIEKFFDSQATGLEDMADVDLDG
LDIESVDDNKKDAIAGQDADDAPVVRFVHKMLLDAIKSGSSDLHFEPYEKTYRVRMRTDGMLREVAKPPSQLANRIAARL
KVMASLDISERRKPQDGRIKMRLSKTKSIDFRVNTLPTLWGEKVVIRILDPSSAQMGIDALGYEPEQKALYMAALKQPQG
MILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPKQGLDFAQALRSFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHMVLSTLHTNSAAETLTRLHNMGIQGFNIATSVTLIIAQRLARKLCSHCKKPIEIPHEALLKEGFPE
ERIGSFTIYEPVGCDQCNGGYKGRVGIYEVVKNTPDLQRLIMAEGNSLEIDIQMRKDGFNDLRTSGLIKAMQGVTSLEEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=525030 JIO00_RS25025 WP_200667028.1 5539048..5540748(+) (pilB) [Pseudomonas sp. SW-3]
ATGAATGACATCGCCCTAAGCGGTCTGGCCAAGCAACTGGTCATGGCCGAACTGCTCACTGAGCAAAGCGCGCAACAGGC
GTATCTGCATGCCCAACGCAGCAAAATCTCCCTGGTCAGTTACCTGGTGCAGAACAAGCTGGTGAAGAGCAGGCAGGTTG
CCGAGATTGCCTCGGAGCATTTCGGCATGGCGCTGCTCGACCTCAATTGCCTGGACAAGGAAGCCCAGCCTCGAGGGTTG
GTCAGCGAGAAACTGATCCGTCAGCACCACGCCCTGCCCCTCTGGCGCCGTGGCAACAAACTGTTCGTGGGGGTTTCCGA
CCCGACCAATCATCAAGCCATCAATGACATCCAGTTCAGCACAGGTCTGAACACCGAAGCCATTCTGGTAGAGGACGATA
AGCTCGGCGATGCCATCGAGAAGTTCTTCGACAGCCAAGCAACCGGCCTGGAAGACATGGCCGATGTTGACCTTGACGGG
CTGGACATCGAGTCGGTCGACGACAACAAAAAGGACGCCATCGCCGGCCAGGATGCCGATGACGCGCCGGTGGTGCGCTT
CGTCCACAAGATGTTGCTCGATGCGATCAAGAGCGGCTCTTCCGACCTGCATTTCGAGCCCTACGAAAAAACCTACCGGG
TGCGGATGCGCACCGACGGCATGCTGCGAGAAGTCGCCAAGCCGCCGAGCCAACTGGCCAACCGCATTGCGGCGCGGCTG
AAAGTCATGGCCAGCCTCGACATCTCCGAGCGGCGCAAACCCCAGGACGGACGGATCAAGATGCGCCTGTCCAAGACCAA
GTCCATCGACTTCCGGGTCAACACCCTGCCGACCCTGTGGGGCGAGAAAGTGGTGATCCGGATCCTCGACCCATCCAGCG
CACAAATGGGCATCGACGCCCTCGGCTACGAGCCTGAACAGAAAGCCTTGTACATGGCTGCGCTGAAGCAGCCACAGGGC
ATGATCCTGGTCACCGGGCCGACCGGTTCGGGCAAGACCGTGTCGCTCTACACCGGGTTGAATATCCTCAACACCGTGGA
CATCAACATCTCCACCGCCGAAGACCCGGTGGAGATCAACATGGAAGGCATCAATCAGGTCAACGTCAATCCCAAGCAAG
GGCTGGATTTCGCCCAGGCTCTGCGCTCGTTCCTGCGTCAGGACCCGGACGTGATCATGGTCGGCGAGATCCGCGACCTC
GAAACCGCCGAAATCGCCATCAAGGCCGCCCAGACCGGGCACATGGTGCTTTCCACCCTGCACACCAACAGCGCCGCAGA
AACCCTGACCCGCCTGCACAACATGGGCATTCAGGGCTTCAACATCGCCACCTCGGTCACCCTGATCATCGCCCAGCGGC
TGGCGCGCAAACTGTGCAGCCATTGCAAGAAACCCATCGAGATTCCCCACGAGGCGTTGCTCAAGGAAGGCTTCCCCGAG
GAACGCATCGGCTCGTTCACGATCTATGAGCCGGTCGGTTGCGATCAGTGCAACGGCGGTTACAAGGGGCGAGTGGGGAT
TTATGAAGTGGTGAAAAACACACCGGACCTGCAACGGCTGATCATGGCCGAAGGCAATTCCCTGGAAATCGACATTCAGA
TGCGCAAGGACGGTTTTAATGACTTGCGCACCTCGGGCTTGATCAAGGCCATGCAAGGCGTCACCAGCCTTGAAGAAATC
AACCGGGTCACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(190-457)

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

(42-147)


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

59.147

99.47

0.588
  pilB Acinetobacter baumannii D1279779

58.688

99.647

0.585
  pilB Legionella pneumophila strain ERS1305867

55.398

99.823

0.553
  pilB Vibrio cholerae strain A1552

51.15

99.823

0.511
  pilB Vibrio parahaemolyticus RIMD 2210633

49.733

99.117

0.493
  pilF Neisseria gonorrhoeae MS11

49.556

99.47

0.493
  pilB Vibrio campbellii strain DS40M4

48.772

100

0.491
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.13

93.463

0.366