Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HY57_RS08000 Genome accession   NZ_CP008884
Coordinates   1938922..1940643 (-) Length   573 a.a.
NCBI ID   WP_026034290.1    Uniprot ID   A0A075K0E1
Organism   Dyella japonica A8     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1933922..1945643
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HY57_RS07975 (HY57_08130) - 1934498..1934986 (+) 489 WP_019467308.1 dihydrofolate reductase -
  HY57_RS07980 (HY57_08135) - 1934999..1935952 (+) 954 WP_019467309.1 Nudix family hydrolase -
  HY57_RS07985 (HY57_08140) coaE 1935954..1936577 (-) 624 WP_019467310.1 dephospho-CoA kinase -
  HY57_RS07990 (HY57_08145) pilD 1936574..1937431 (-) 858 WP_019467311.1 A24 family peptidase Machinery gene
  HY57_RS07995 (HY57_08150) pilC 1937499..1938761 (-) 1263 WP_019467312.1 type II secretion system F family protein Machinery gene
  HY57_RS08000 (HY57_08155) pilB 1938922..1940643 (-) 1722 WP_026034290.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HY57_RS08005 (HY57_08160) - 1940895..1942043 (+) 1149 WP_019467314.1 DegT/DnrJ/EryC1/StrS family aminotransferase -
  HY57_RS08010 (HY57_08165) - 1942164..1943018 (+) 855 WP_019467315.1 glycosyltransferase family 2 protein -
  HY57_RS08015 - 1943089..1944336 (+) 1248 WP_081500754.1 glycosyltransferase -
  HY57_RS08020 (HY57_08175) - 1944333..1945070 (+) 738 WP_019467317.1 class I SAM-dependent methyltransferase -

Sequence

Protein


Download         Length: 573 a.a.        Molecular weight: 62552.11 Da        Isoelectric Point: 6.4320

>NTDB_id=125438 HY57_RS08000 WP_026034290.1 1938922..1940643(-) (pilB) [Dyella japonica A8]
MSTLMQPSLAGLTGLARRLVSEGVLPEADVRRAVAESTQSKASLTAWLLDNNQVESARLTRIASDEFGMPMMDVSALVPA
NMPVNLISEALINKHHALPLFKRGKRLFVGIADPMQSHALDEIKFHSNCMVEPILVERGQLLRSIEIALTAMSNAVPDMG
GSEFDELSLEGGDDEAETTGIDANANDDAPVVKFVNKILVDAIKRGASDIHFEPFETQYRVRLRMDGMLRAVASPPMKLA
SRISSRIKVMSGLDIAERRVPQDGRIKLNLSKSRSVDFRVSTLPTLFGEKIVLRILDGSAARLGIDALGYEDVQKQLYIE
AIHKPYGMVLVTGPTGSGKTVSLYTALNILNTNERNISTVEDPVEIRVEGINQVQQNVKRGMTFAAALRSFLRQDPDVIM
VGEIRDLETAEIAVKAAQTGHMVLSTLHTNDASQTISRLMNMGIAPYNITSSVTLIIAQRLARRLHDCKRPMTLPPQTLL
DAGFTQEDIDGGLTVYEAVGCDSCNEGYKGRVGIYQVMPMLEDIQKIILQGGNTLQIAEAARKAGVNDLRASALLKVKKG
VTSLAEIDRVTKD

Nucleotide


Download         Length: 1722 bp        

>NTDB_id=125438 HY57_RS08000 WP_026034290.1 1938922..1940643(-) (pilB) [Dyella japonica A8]
ATGTCAACGCTAATGCAACCTTCGCTCGCGGGCCTTACCGGCCTTGCGCGCCGACTGGTATCGGAAGGTGTGCTGCCCGA
AGCCGACGTACGCCGGGCGGTCGCTGAGTCCACCCAGAGCAAGGCCTCGCTCACGGCCTGGCTGCTGGACAACAACCAGG
TGGAGAGCGCGCGACTCACCCGCATCGCATCCGACGAGTTCGGCATGCCGATGATGGACGTCAGCGCGCTGGTGCCGGCC
AACATGCCGGTGAACCTGATCAGCGAGGCGCTGATCAACAAGCACCACGCCCTGCCCCTGTTCAAGCGCGGCAAGCGTCT
GTTCGTCGGTATTGCCGACCCGATGCAGTCGCATGCGCTGGACGAGATCAAGTTCCACTCCAACTGCATGGTGGAACCGA
TCCTGGTCGAGCGCGGCCAGTTGCTGCGCTCCATCGAGATCGCGCTCACCGCCATGAGCAACGCCGTGCCCGACATGGGC
GGCAGCGAATTCGACGAGCTCTCGCTGGAAGGCGGTGACGACGAGGCCGAAACCACCGGCATCGACGCCAATGCGAATGA
CGACGCCCCCGTGGTCAAGTTCGTCAACAAGATCCTGGTCGACGCAATCAAGCGCGGCGCCTCCGACATCCATTTCGAAC
CGTTCGAAACGCAGTACCGGGTGCGCCTGCGCATGGACGGCATGCTGCGCGCGGTGGCCAGCCCGCCGATGAAGCTCGCC
TCGCGCATTTCTTCGCGCATCAAGGTGATGTCGGGCCTCGATATCGCCGAACGCCGCGTACCGCAGGACGGCCGCATCAA
GCTCAATCTGTCCAAGAGCCGTTCGGTCGACTTCCGCGTGAGCACGTTGCCCACGCTGTTCGGCGAGAAGATCGTGCTGC
GTATCCTGGACGGCTCGGCCGCCAGGCTCGGCATCGACGCCCTGGGCTACGAGGACGTCCAGAAACAGCTCTACATCGAA
GCCATCCACAAGCCCTACGGCATGGTGCTGGTCACCGGCCCCACCGGCTCGGGCAAGACGGTGTCGCTGTATACGGCGCT
GAACATCCTCAACACCAACGAGCGCAACATCTCGACGGTGGAAGACCCGGTGGAAATCCGCGTGGAGGGCATCAACCAGG
TGCAGCAGAACGTCAAGCGCGGCATGACCTTCGCCGCCGCCCTGCGTTCCTTCCTGCGCCAGGACCCGGACGTGATCATG
GTGGGCGAAATCCGCGACCTGGAAACCGCCGAGATCGCCGTGAAGGCCGCGCAGACCGGTCACATGGTGTTGTCCACCCT
GCACACCAACGATGCTTCGCAGACCATTTCGCGCCTGATGAACATGGGCATCGCGCCCTACAACATCACCTCGTCGGTCA
CCCTGATCATCGCCCAGCGACTGGCGCGCCGCCTGCACGATTGCAAGCGGCCGATGACCTTGCCGCCCCAGACACTGCTG
GATGCGGGCTTCACCCAGGAAGACATCGACGGCGGCCTGACCGTCTACGAGGCCGTGGGTTGCGACAGCTGCAACGAGGG
CTACAAGGGCCGCGTGGGCATCTACCAGGTCATGCCCATGCTGGAAGACATTCAGAAGATCATCCTTCAAGGCGGCAACA
CGCTGCAGATCGCCGAGGCCGCCCGCAAGGCCGGTGTGAACGACCTGCGCGCATCCGCCCTGCTGAAGGTGAAGAAGGGT
GTGACCAGCCTGGCCGAGATCGACCGCGTCACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(197-464)

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

(19-145)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A075K0E1

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

54.754

99.127

0.543
  pilB Acinetobacter baylyi ADP1

53.913

100

0.541
  pilB Legionella pneumophila strain ERS1305867

52.197

99.302

0.518
  pilF Neisseria gonorrhoeae MS11

48.404

98.429

0.476
  pilB Vibrio cholerae strain A1552

50

94.939

0.475
  pilB Vibrio campbellii strain DS40M4

47.173

98.778

0.466
  pilB Vibrio parahaemolyticus RIMD 2210633

47.08

98.604

0.464
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.095

95.288

0.363
  pilF Thermus thermophilus HB27

37.23

97.033

0.361

Multiple sequence alignment