Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   D3X10_RS11270 Genome accession   NZ_CP032415
Coordinates   2331498..2333204 (+) Length   568 a.a.
NCBI ID   WP_117200239.1    Uniprot ID   -
Organism   Shewanella algae strain VGH117     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2326498..2338204
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D3X10_RS11245 (D3X10_11300) pdhR 2326638..2327390 (-) 753 WP_025886793.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  D3X10_RS11250 (D3X10_11305) ampE 2327666..2328517 (-) 852 WP_117200242.1 beta-lactamase regulator AmpE -
  D3X10_RS11255 (D3X10_11310) ampD 2328571..2329149 (-) 579 WP_051541442.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  D3X10_RS11260 (D3X10_11315) nadC 2329308..2330168 (+) 861 WP_025012052.1 carboxylating nicotinate-nucleotide diphosphorylase -
  D3X10_RS11265 (D3X10_11325) - 2331036..2331476 (+) 441 WP_117200240.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  D3X10_RS11270 (D3X10_11330) pilB 2331498..2333204 (+) 1707 WP_117200239.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D3X10_RS11275 (D3X10_11335) pilC 2333361..2334623 (+) 1263 WP_117200238.1 type II secretion system F family protein Machinery gene
  D3X10_RS11280 (D3X10_11340) pilD 2334693..2335607 (+) 915 WP_117200237.1 A24 family peptidase Machinery gene
  D3X10_RS11285 (D3X10_11345) coaE 2335608..2336219 (+) 612 WP_117200236.1 dephospho-CoA kinase -
  D3X10_RS11290 (D3X10_11350) zapD 2336216..2336956 (+) 741 WP_028779562.1 cell division protein ZapD -
  D3X10_RS11295 (D3X10_11355) yacG 2337001..2337213 (+) 213 WP_025886789.1 DNA gyrase inhibitor YacG -
  D3X10_RS11300 (D3X10_11360) mutT 2337213..2337611 (+) 399 WP_117200235.1 8-oxo-dGTP diphosphatase MutT -
  D3X10_RS11305 (D3X10_11365) - 2337682..2337945 (+) 264 Protein_2030 transposase -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62973.05 Da        Isoelectric Point: 5.1709

>NTDB_id=315623 D3X10_RS11270 WP_117200239.1 2331498..2333204(+) (pilB) [Shewanella algae strain VGH117]
MPTTGLHLGLSTLFIRKGLLDESSLSEAIKQSQKNKQTLVTTLVTSQLLSARTIAELCYEEYGTPLLDLNEFDLGSIPEE
FLNKKLIDKHRCLPLFKRGNRLYIATSDPTNIAALEDFQFSAGLHAEAILVEEDKLSKALEKVLEEDLSSLELDGLDEES
LAGIEVTDTDKRPEENNDSKDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLSGRISAR
LKVMSKLDIAERRVPQDGRIKMRLSRNKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEEDQKQAYLEMLARPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINTKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSSAETLTRLLNMGVPGYNIASSVNLIIAQRLARRLCPECRQPEDIPEHELLQLGFS
QQQIDAGFTPYKPCGCDLCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIAATAKQQGMRDLRLSGLLKVIQGVTSIA
EVNRVTSY

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=315623 D3X10_RS11270 WP_117200239.1 2331498..2333204(+) (pilB) [Shewanella algae strain VGH117]
ATGCCGACTACTGGCCTTCATCTAGGGTTATCGACACTCTTTATCCGTAAAGGACTACTCGACGAGAGTAGCCTTTCGGA
GGCCATCAAGCAGTCGCAAAAGAACAAGCAAACACTGGTCACCACTCTGGTGACCAGTCAACTTTTATCCGCCCGCACTA
TCGCCGAACTCTGCTACGAAGAGTATGGCACCCCATTGCTGGATCTCAATGAGTTCGATCTTGGCAGCATTCCGGAAGAG
TTTCTCAATAAAAAGCTAATCGACAAGCATCGCTGCCTGCCGTTATTCAAGCGCGGCAACCGCCTCTATATCGCCACTTC
TGACCCCACCAATATTGCCGCCCTGGAAGACTTTCAGTTCAGTGCCGGCCTGCACGCCGAAGCAATACTAGTAGAGGAAG
ATAAGCTCAGTAAAGCGCTGGAAAAAGTACTCGAAGAAGACCTCAGCTCTTTAGAGCTAGATGGTCTCGATGAGGAATCC
CTCGCCGGTATCGAAGTCACAGATACTGACAAGCGTCCAGAAGAAAACAACGACAGTAAAGACGACGCCCCAATAGTCAT
CTATATCAATAAGATTTTGACCGATGCCATCCGCAAGGGCGCATCGGATCTGCATTTCGAGCCCTACGAGAAACGCTACC
GCATCCGCTTTCGTATTGATGGCATCCTCCACGAGGTGTCCGAGCCACCCATTTCTCTCTCGGGCCGCATCTCAGCCCGC
TTGAAGGTGATGTCCAAACTGGATATCGCCGAGCGCCGTGTTCCTCAGGATGGCCGCATCAAGATGAGGTTATCCCGCAA
CAAGAGTATCGATTTCCGGGTAAGTACCCTGCCCACCCTCTGGGGTGAAAAGATAGTGATGCGGATCCTCGACTCCTCTT
CGGCGCAATTAGGAATCGAAAAACTCGGCTATGAGGAAGACCAAAAACAAGCCTATCTGGAGATGCTGGCAAGGCCCCAA
GGGATGATCTTGGTCACCGGTCCTACCGGCTCAGGCAAAACCGTGTCCCTCTATACTGGCCTCAATATCCTCAATACCGA
AGAGCGCAATATCAGCACCGCCGAAGACCCGGTAGAGATCAATCTGGAAGGGGTCAACCAGGTACATATTAATACCAAGG
CAGGGCTAACCTTCGCCTCGGCGCTGCGCTCTTTCCTGCGTCAAGACCCGGATGTGGTGATGGTCGGGGAAATCCGCGAC
TTGGAAACCGCCGAAATCGCCATCAAGGCGGCACAAACCGGCCACTTGGTACTCTCGACCCTGCATACCAACTCATCGGC
CGAAACCCTTACCCGCCTGCTTAACATGGGTGTTCCCGGCTATAATATCGCCAGCTCTGTCAATCTGATTATCGCCCAGC
GTCTGGCTCGCCGCCTCTGCCCCGAATGCCGTCAACCGGAAGATATCCCCGAGCATGAACTGCTGCAACTGGGCTTCAGT
CAGCAGCAGATAGACGCCGGCTTTACCCCTTACAAGCCCTGTGGCTGCGATCTCTGCTCCGGTGGCTATAAGGGCCGGGT
CGGTATCTATGAGGTGATGAAGATGTCCGATGAAATTGCCAGAACTATTATGGAGGGCGGTAATTCGCTGCAGATTGCCG
CCACTGCCAAACAACAAGGGATGCGCGATCTGCGCCTTTCTGGCCTTTTAAAAGTAATTCAAGGTGTTACCAGTATCGCC
GAAGTGAATCGGGTCACCAGCTACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

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

(43-145)


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

58.792

99.12

0.583
  pilB Acinetobacter baylyi ADP1

58.824

98.768

0.581
  pilB Legionella pneumophila strain ERS1305867

56.36

99.648

0.562
  pilB Vibrio parahaemolyticus RIMD 2210633

53.169

100

0.532
  pilB Vibrio campbellii strain DS40M4

51.51

99.12

0.511
  pilB Vibrio cholerae strain A1552

54.685

92.077

0.504
  pilF Neisseria gonorrhoeae MS11

47.788

99.472

0.475
  pilF Thermus thermophilus HB27

38.313

100

0.384
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.6

98.063

0.379
  pilB/pilB1 Synechocystis sp. PCC 6803

41.283

87.852

0.363

Multiple sequence alignment