Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RCF95_RS12670 Genome accession   NZ_CP133197
Coordinates   2104464..2106185 (-) Length   573 a.a.
NCBI ID   WP_308872749.1    Uniprot ID   -
Organism   Thiothrix subterranea strain DNT53     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2099464..2111185
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RCF95_RS12645 opgC 2099868..2101049 (+) 1182 WP_308135536.1 OpgC domain-containing protein -
  RCF95_RS12650 ubiE 2100995..2101746 (-) 752 Protein_2484 bifunctional demethylmenaquinone methyltransferase/2-methoxy-6-polyprenyl-1,4-benzoquinol methylase UbiE -
  RCF95_RS12655 - 2101828..2102226 (+) 399 WP_308874977.1 hypothetical protein -
  RCF95_RS12660 pilD 2102231..2103106 (-) 876 WP_308135539.1 A24 family peptidase Machinery gene
  RCF95_RS12665 pilC 2103121..2104266 (-) 1146 WP_308872748.1 type II secretion system F family protein Machinery gene
  RCF95_RS12670 pilB 2104464..2106185 (-) 1722 WP_308872749.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RCF95_RS12675 - 2106266..2107822 (-) 1557 WP_308135541.1 AAA family ATPase -
  RCF95_RS12680 - 2108009..2108833 (+) 825 WP_308872750.1 Rpn family recombination-promoting nuclease/putative transposase -
  RCF95_RS12685 tfpZ 2108979..2109746 (-) 768 WP_308135542.1 TfpX/TfpZ family type IV pilin accessory protein -
  RCF95_RS12690 - 2109782..2110324 (-) 543 WP_308135543.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  RCF95_RS12695 - 2110403..2110957 (-) 555 WP_374048253.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 573 a.a.        Molecular weight: 63004.88 Da        Isoelectric Point: 6.9643

>NTDB_id=872429 RCF95_RS12670 WP_308872749.1 2104464..2106185(-) (pilB) [Thiothrix subterranea strain DNT53]
MIPLTSSIPLPGLARQLVVQDLLDKESATQAVQKARAEKVSLVEWMIRSRIVSTKDVAYAASLEYGLSMVDLDQISIPPP
IAALLSPEQMRKLNLIPLYQRGKNLMVGLADPTYLTNLDDVKFATGLIPEPVFVEFDKLQRYISSDDGMSGHAAQPHSGK
ASPTAAPVAAAKEISLDVRDLKTKDDEDPAVIEFVDKLLAHGIKSKASDIHIEIFEKNMRIRYRIDGILQVVATPPNDSA
QQLISRIKVLARMNISERRVPQDGRIRFTVSDKQKIDFRVNTLPTLFGEKVVMRILDSSNATLGVEKLGFEPKQQHDFMK
ALEKPDGMILVTGPAGSGKTVTLYTGLGILNTPEKNISTAEDPAEINMPGVNQVNVNAKVGLTFAEALRSFLRQDPDIIM
VGEIRDLETAEIAIKAAQTGHLVLSTLHTNSAPETLTRLMNMGVPTFNIASSIHLIIAQRLARRLCENCKKPSEVPRDVL
LQMGFHQEEIPALKLYEPCGCSECSRGYKGRVGIYQVMPISAEMGRMIMNGSNSLEIAEQSLKEGIADLRRSALNKVRQG
VTSLAELERVTSD

Nucleotide


Download         Length: 1722 bp        

>NTDB_id=872429 RCF95_RS12670 WP_308872749.1 2104464..2106185(-) (pilB) [Thiothrix subterranea strain DNT53]
ATGATTCCGCTGACTTCTTCCATCCCCTTACCGGGGTTAGCCAGACAATTAGTTGTGCAAGACTTGCTCGACAAAGAGTC
GGCGACGCAAGCCGTGCAAAAAGCGCGTGCGGAAAAAGTCTCGCTGGTGGAATGGATGATCCGCTCACGCATCGTATCCA
CCAAAGACGTCGCCTACGCCGCCAGCCTCGAATACGGCCTCAGTATGGTCGACCTCGACCAAATCAGCATTCCGCCGCCG
ATTGCAGCCTTGCTCAGCCCAGAGCAAATGCGCAAACTCAACCTGATTCCCCTCTATCAGCGCGGCAAAAATCTCATGGT
GGGCTTGGCTGACCCCACGTATTTGACCAATCTGGATGATGTCAAATTTGCCACCGGCTTAATCCCCGAACCCGTTTTTG
TCGAATTCGACAAGCTGCAACGCTACATCAGCAGCGACGACGGCATGAGCGGGCACGCCGCCCAACCTCACAGCGGCAAA
GCCTCTCCTACTGCCGCGCCGGTAGCCGCTGCCAAAGAAATATCCCTAGACGTCCGCGATCTCAAAACCAAAGATGACGA
AGATCCCGCCGTCATTGAATTCGTCGACAAGCTGTTAGCTCATGGCATTAAATCCAAAGCGTCGGATATTCACATTGAAA
TCTTTGAAAAAAACATGCGCATCCGCTACCGGATCGACGGCATTTTGCAAGTCGTTGCCACCCCACCCAACGATTCCGCC
CAGCAATTAATTTCGCGCATCAAAGTACTGGCGCGGATGAACATTTCCGAACGCCGCGTCCCTCAAGACGGGCGTATTCG
CTTTACGGTCAGCGACAAGCAAAAAATCGACTTTCGTGTCAACACCCTCCCCACCCTGTTCGGTGAAAAAGTGGTTATGC
GGATACTTGACTCATCCAACGCCACGCTAGGGGTAGAAAAGCTCGGTTTTGAACCCAAGCAACAACACGATTTCATGAAA
GCGCTGGAAAAACCCGATGGCATGATTCTGGTAACAGGCCCAGCCGGTAGCGGTAAAACCGTCACGCTATACACCGGTTT
AGGCATCCTCAACACCCCGGAAAAAAACATTTCCACTGCCGAAGACCCCGCCGAAATCAATATGCCCGGCGTGAACCAAG
TCAACGTCAACGCCAAAGTCGGGCTGACCTTTGCCGAAGCTCTGCGCTCTTTTTTGCGTCAAGACCCGGACATCATCATG
GTGGGGGAAATCCGCGACCTTGAAACCGCTGAAATTGCCATCAAAGCGGCACAAACCGGACACTTGGTGTTATCCACGTT
GCACACCAATAGCGCCCCGGAAACCTTGACCCGTTTGATGAACATGGGCGTGCCGACGTTCAATATCGCCTCCTCCATTC
ACTTAATTATTGCCCAACGCCTCGCCCGGCGCTTGTGTGAAAATTGCAAAAAACCCTCGGAGGTACCCCGCGACGTTTTG
CTGCAAATGGGCTTTCACCAAGAGGAAATTCCAGCCCTCAAGCTGTATGAGCCTTGCGGCTGTTCAGAATGTTCGCGCGG
CTACAAAGGGCGGGTAGGTATTTACCAAGTCATGCCGATTTCCGCCGAAATGGGGCGCATGATTATGAATGGCAGCAACT
CGCTGGAAATCGCTGAACAATCCCTCAAAGAAGGCATTGCGGATTTACGCCGTTCCGCGCTCAACAAAGTGCGCCAAGGC
GTCACCTCATTGGCTGAATTGGAGCGCGTCACTTCAGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(198-464)

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

(47-144)


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 baumannii D1279779

50.685

100

0.517
  pilB Acinetobacter baylyi ADP1

49.746

100

0.513
  pilB Legionella pneumophila strain ERS1305867

49.652

100

0.497
  pilF Neisseria gonorrhoeae MS11

47.88

98.778

0.473
  pilB Vibrio cholerae strain A1552

46.751

96.684

0.452
  pilB Vibrio parahaemolyticus RIMD 2210633

46.507

94.939

0.442
  pilB Vibrio campbellii strain DS40M4

46.055

95.113

0.438
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.377

95.288

0.375
  pilF Thermus thermophilus HB27

37.943

98.429

0.373
  pilB/pilB1 Synechocystis sp. PCC 6803

34.74

100

0.373