Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KHX94_RS07305 Genome accession   NZ_CP074572
Coordinates   1539653..1541359 (+) Length   568 a.a.
NCBI ID   WP_213682922.1    Uniprot ID   -
Organism   Shewanella dokdonensis strain DSM 23626     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1534653..1546359
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KHX94_RS07280 (KHX94_07275) pdhR 1534820..1535572 (-) 753 WP_213682918.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  KHX94_RS07285 (KHX94_07280) ampE 1535852..1536703 (-) 852 WP_213682919.1 beta-lactamase regulator AmpE -
  KHX94_RS07290 (KHX94_07285) ampD 1536826..1537371 (-) 546 WP_213682920.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  KHX94_RS07295 (KHX94_07290) nadC 1537570..1538439 (+) 870 WP_213683366.1 carboxylating nicotinate-nucleotide diphosphorylase -
  KHX94_RS07300 (KHX94_07295) - 1539204..1539641 (+) 438 WP_213682921.1 pilin -
  KHX94_RS07305 (KHX94_07300) pilB 1539653..1541359 (+) 1707 WP_213682922.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KHX94_RS07310 (KHX94_07305) pilC 1541427..1542695 (+) 1269 WP_213682923.1 type II secretion system F family protein Machinery gene
  KHX94_RS07315 (KHX94_07310) pilD 1542777..1543691 (+) 915 WP_213682924.1 A24 family peptidase Machinery gene
  KHX94_RS07320 (KHX94_07315) coaE 1543745..1544299 (+) 555 WP_244859373.1 dephospho-CoA kinase -
  KHX94_RS07325 (KHX94_07320) zapD 1544304..1545038 (+) 735 WP_213682925.1 cell division protein ZapD -
  KHX94_RS07330 (KHX94_07325) yacG 1545083..1545304 (+) 222 WP_213682926.1 DNA gyrase inhibitor YacG -
  KHX94_RS07335 (KHX94_07330) mutT 1545310..1545711 (+) 402 WP_213682927.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62948.29 Da        Isoelectric Point: 5.7234

>NTDB_id=565350 KHX94_RS07305 WP_213682922.1 1539653..1541359(+) (pilB) [Shewanella dokdonensis strain DSM 23626]
MPTTGLHLGLSTLFIRKGLLDESRLAEAIAQSRKHKQSLVTTLVASKLLSARTIAELCYEEYGTPLLDLAEFDVSSIPEE
FLNRKLIDKHRCLPLFKRGNRLYIATSDPTNIAALEEFQFSAGLHAEAILVEEDKLAKALDKILEEDISALDLSGIDENA
LAGIEVTDTDKRQDDAAESADDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPINLASRISAR
LKVMSKLDIAERRVPQDGRIKMKLSRNKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEEDQKQAYLEMLSRPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINIKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSSAETLTRLLNMGVPGYNIASSVNLIIAQRLARRLCVECRQAEDIPEHELLKLGFS
QEQIATGFTVYKPCGCEHCSGGYKGRVGIYEVMKMSDEIARIIMEGGNSLQIARMAKEQGMRDLRQSGLLKVVEGVTSIA
EINRVTSY

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=565350 KHX94_RS07305 WP_213682922.1 1539653..1541359(+) (pilB) [Shewanella dokdonensis strain DSM 23626]
ATGCCAACAACTGGTCTCCACCTCGGATTATCAACGCTGTTTATCCGTAAAGGTCTGCTGGATGAAAGCCGACTCGCGGA
GGCCATCGCTCAATCCCGCAAGCACAAACAGTCACTGGTCACCACCTTGGTGGCCAGTAAACTGTTATCGGCGCGTACCA
TTGCCGAGCTGTGTTACGAAGAATACGGCACGCCGCTGCTGGATTTAGCCGAGTTTGACGTTAGCAGCATTCCGGAAGAA
TTTTTAAACCGTAAACTGATTGATAAACACCGCTGCTTACCGCTGTTTAAACGCGGCAACCGTTTGTATATTGCCACCTC
AGACCCCACCAATATTGCCGCTTTGGAAGAGTTCCAATTTAGCGCCGGCTTACATGCCGAAGCGATTTTGGTGGAGGAAG
ACAAACTCGCCAAAGCGCTCGACAAGATACTGGAAGAGGATATCAGCGCGCTGGATCTCAGTGGCATTGATGAAAATGCC
CTCGCGGGGATTGAAGTTACCGACACCGATAAACGCCAGGACGATGCAGCAGAAAGCGCTGATGATGCGCCGATAGTTAT
CTATATCAACAAAATTCTTACCGATGCCATCCGCAAAGGCGCATCGGACTTACATTTTGAACCTTACGAAAAACGCTACC
GCATCCGGTTTCGCATTGACGGCATATTGCACGAAGTCTCTGAACCGCCCATCAACCTAGCATCCCGGATCTCGGCCCGC
TTGAAGGTAATGTCGAAACTGGATATTGCCGAGCGGCGGGTGCCGCAGGATGGCCGCATCAAGATGAAGCTGTCGCGCAA
TAAGAGCATCGATTTTCGTGTCAGCACCCTGCCCACGCTTTGGGGCGAAAAGATAGTAATGCGTATCCTCGATTCCTCTT
CCGCCCAGTTAGGGATTGAAAAGCTCGGCTACGAAGAGGATCAAAAACAGGCCTATCTGGAGATGTTATCACGGCCACAG
GGGATGATCCTGGTCACCGGCCCCACAGGTTCTGGTAAAACCGTGTCGCTTTATACCGGGTTGAATATCCTCAATACCGA
AGAGCGCAACATCTCCACCGCCGAAGACCCGGTAGAAATTAACCTCGAAGGGGTCAACCAAGTCCATATCAATATTAAAG
CCGGGCTGACCTTTGCCTCGGCGTTGCGCTCGTTTCTGCGTCAAGACCCTGATGTGGTGATGGTAGGGGAAATCCGTGAC
CTGGAAACCGCTGAAATTGCTATCAAGGCCGCCCAGACCGGCCACTTAGTCTTATCGACCCTGCATACTAACTCTTCTGC
GGAGACCCTCACCCGTTTGCTCAACATGGGTGTGCCTGGTTATAACATCGCCAGTTCGGTGAATCTGATCATTGCGCAGC
GGCTGGCGCGGCGTTTATGTGTCGAGTGTCGCCAAGCAGAAGATATTCCTGAGCATGAGCTGTTAAAGTTAGGTTTCAGT
CAGGAACAGATAGCCACAGGCTTTACCGTGTATAAACCCTGTGGTTGTGAACACTGCTCTGGCGGTTACAAAGGGCGGGT
GGGGATCTATGAAGTGATGAAGATGTCCGACGAAATTGCCCGGATCATCATGGAAGGTGGCAATTCATTACAGATTGCCC
GCATGGCCAAGGAACAGGGGATGCGCGATCTACGCCAATCCGGTTTACTGAAAGTAGTTGAAGGTGTGACCAGTATTGCC
GAAATTAACCGTGTGACCAGCTACTAA

Domains

Predicted by InterproScan.

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

(43-144)

Type II/IV secretion system protein (T2SSE)

(191-458)


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

58.824

98.768

0.581
  pilB Acinetobacter baumannii D1279779

58.437

99.12

0.579
  pilB Legionella pneumophila strain ERS1305867

57.42

99.648

0.572
  pilB Vibrio cholerae strain A1552

53.763

98.239

0.528
  pilB Vibrio parahaemolyticus RIMD 2210633

51.67

100

0.518
  pilB Vibrio campbellii strain DS40M4

50.712

98.944

0.502
  pilF Neisseria gonorrhoeae MS11

48.807

95.951

0.468
  pilB/pilB1 Synechocystis sp. PCC 6803

37.686

100

0.401
  pilF Thermus thermophilus HB27

37.961

100

0.38
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.962

93.838

0.375