Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RCH27_RS18625 Genome accession   NZ_CP133289
Coordinates   3979969..3981705 (+) Length   578 a.a.
NCBI ID   WP_011796722.1    Uniprot ID   A1TTE0
Organism   Paracidovorax citrulli strain YDAC2     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3974969..3986705
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RCH27_RS18600 (RCH27_18555) - 3975210..3976190 (+) 981 WP_041828122.1 polyprenyl synthetase family protein -
  RCH27_RS18610 (RCH27_18565) - 3976449..3977648 (-) 1200 WP_011796719.1 M20 aminoacylase family protein -
  RCH27_RS18615 (RCH27_18570) - 3977645..3978628 (-) 984 WP_011796720.1 Bug family tripartite tricarboxylate transporter substrate binding protein -
  RCH27_RS18620 (RCH27_18575) - 3978728..3979660 (+) 933 WP_011796721.1 LysR substrate-binding domain-containing protein -
  RCH27_RS18625 (RCH27_18580) pilB 3979969..3981705 (+) 1737 WP_011796722.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RCH27_RS18630 (RCH27_18585) pilC 3981737..3982954 (+) 1218 WP_017438049.1 type II secretion system F family protein Machinery gene
  RCH27_RS18635 (RCH27_18590) - 3982954..3983841 (+) 888 WP_011796724.1 prepilin peptidase -
  RCH27_RS18640 (RCH27_18595) coaE 3983838..3984464 (+) 627 WP_011796725.1 dephospho-CoA kinase -
  RCH27_RS18645 (RCH27_18600) zapD 3984529..3985284 (+) 756 WP_041828126.1 cell division protein ZapD -
  RCH27_RS18650 (RCH27_18605) - 3985311..3985565 (+) 255 WP_011796727.1 DNA gyrase inhibitor YacG -
  RCH27_RS18655 (RCH27_18610) - 3985623..3986078 (-) 456 WP_011796728.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 63210.41 Da        Isoelectric Point: 5.3406

>NTDB_id=873326 RCH27_RS18625 WP_011796722.1 3979969..3981705(+) (pilB) [Paracidovorax citrulli strain YDAC2]
MADADSALKDASSIALPGLGRALISAGQLTQKVAEDIYRKSQANRSSFIAELTGSGSVSPINLAHTVSSVFGAPLLDIEA
IDPLRLPRDVLDPKICQAYRVIVLSKRNNRLIVATADPTDQEAAEKIKFTTQMGVDWIIAEYDKLVRLVDATTKSTTETM
ESMVSGGDFEFDDLPAQESTEAQDTAATEVEDAPIVKFLHKMLLDAFNMRASDLHFEPYEHQYRVRFRIDGELREIASPP
IAIKEKLASRIKVISRLDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSAKLGIDALGYEPEEKE
RLLHAIGRPYGMILVTGPTGSGKTVSLYTCLNLLNKPGVNIATAEDPSEINLPGVNQVNVNEKAGLTFATALKSFLRQDP
DIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCPACKAPADIP
HETLLEAGYREEDIDGSWVTYRPVGCSACNNGYKGRVGIYQVMPVSEEIQRIILRDGSALEIAEQAKAEGVRSLRESGLH
KARMGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=873326 RCH27_RS18625 WP_011796722.1 3979969..3981705(+) (pilB) [Paracidovorax citrulli strain YDAC2]
ATGGCTGACGCCGATTCCGCCCTCAAGGACGCTTCCAGTATCGCTTTGCCCGGCCTGGGGCGGGCGCTGATTTCGGCCGG
GCAGCTCACCCAGAAGGTGGCGGAGGACATCTACAGGAAGTCCCAGGCCAACCGCAGCAGTTTCATCGCCGAGCTGACCG
GCTCAGGCTCGGTGTCCCCGATCAATCTGGCGCATACCGTGTCGTCGGTGTTCGGTGCCCCCCTGCTCGACATCGAGGCC
ATCGATCCGCTGCGCCTGCCGCGCGACGTGCTGGATCCGAAGATCTGCCAGGCGTACCGCGTCATCGTGCTGAGCAAGCG
CAACAACCGGCTCATCGTCGCGACGGCGGACCCGACCGACCAGGAGGCGGCGGAGAAGATCAAGTTCACCACCCAGATGG
GCGTGGACTGGATCATCGCCGAGTACGACAAGCTGGTGCGGCTGGTGGATGCGACCACCAAGTCCACGACCGAGACCATG
GAAAGCATGGTCTCCGGGGGCGATTTCGAGTTCGACGACCTGCCGGCGCAGGAAAGTACCGAAGCCCAGGACACGGCCGC
GACGGAGGTCGAAGACGCCCCCATCGTCAAGTTCCTGCACAAGATGCTGCTGGACGCGTTCAACATGCGCGCGTCCGATC
TGCACTTCGAGCCGTACGAGCACCAGTACCGGGTGCGCTTCCGGATCGACGGCGAGCTGCGCGAGATCGCGTCGCCGCCC
ATCGCGATCAAGGAGAAGCTGGCCTCGCGCATCAAGGTGATCTCCCGCCTGGACATCTCGGAAAAGCGCGTTCCCCAGGA
CGGGCGCATGAAGCTCAAGGTGGGGCCGGACCGGGTGATCGACTTCCGCGTGAGCACGCTGCCCACGCTGTTCGGCGAGA
AGATCGTGATCCGTATCCTCGACCCCAGCAGCGCCAAGCTGGGCATCGACGCGCTCGGCTACGAGCCCGAGGAGAAGGAA
CGCCTGCTCCATGCCATCGGCCGGCCCTACGGCATGATCCTGGTGACGGGACCGACGGGCTCGGGCAAGACGGTGTCGCT
CTACACCTGCCTGAACCTGCTGAACAAGCCGGGGGTGAACATCGCGACGGCGGAAGACCCGTCCGAAATCAACCTGCCCG
GCGTCAACCAGGTCAACGTGAACGAGAAAGCCGGCCTGACCTTCGCCACGGCGCTGAAGTCGTTCCTGCGCCAGGATCCC
GACATCATCATGGTGGGGGAAATCCGCGACCTGGAAACCGCGGACATCTCGATCAAGGCGGCCCAGACGGGCCACCTCGT
GCTCTCCACGCTGCATACCAACGACGCGCCCACCACGCTGACGCGGATGCGGAACATGGGCATCGCGCCCTTCAACATCG
CGTCGAGCGTGATCCTGATCACGGCGCAGCGCCTGGCCCGCCGGCTGTGCCCCGCCTGCAAGGCGCCTGCGGACATCCCC
CACGAGACGCTGCTCGAGGCGGGCTACAGGGAAGAGGACATCGACGGCTCCTGGGTGACCTACCGCCCTGTGGGCTGCTC
TGCATGCAACAACGGCTACAAGGGCCGCGTCGGCATCTACCAGGTGATGCCGGTCTCGGAAGAGATCCAGCGCATCATCC
TGCGCGACGGCAGCGCGCTGGAGATCGCGGAGCAGGCGAAGGCCGAAGGCGTGCGGTCGCTGCGCGAATCCGGACTCCAC
AAGGCACGGATGGGCCTGACCTCGCTCGAAGAGGTGCTCGCCGTGACCAACGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(56-151)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A1TTE0

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

54.657

98.443

0.538
  pilB Acinetobacter baumannii D1279779

53.054

99.135

0.526
  pilF Neisseria gonorrhoeae MS11

53.014

97.578

0.517
  pilB Legionella pneumophila strain ERS1305867

49.645

97.578

0.484
  pilB Vibrio parahaemolyticus RIMD 2210633

45.088

98.616

0.445
  pilB Vibrio campbellii strain DS40M4

44.742

97.059

0.434
  pilB Vibrio cholerae strain A1552

47.238

90.83

0.429
  pilF Thermus thermophilus HB27

39.487

100

0.4
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.481

93.599

0.379