Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   MDS_RS04450 Genome accession   NC_015410
Coordinates   976825..978525 (-) Length   566 a.a.
NCBI ID   WP_041769664.1    Uniprot ID   -
Organism   Ectopseudomonas mendocina NK-01     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 971825..983525
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  MDS_RS04420 (MDS_0881) - 972661..973350 (+) 690 WP_013714024.1 energy-coupling factor ABC transporter permease -
  MDS_RS04425 (MDS_0882) - 973456..973671 (+) 216 WP_013714025.1 hypothetical protein -
  MDS_RS04430 (MDS_0883) yacG 973743..973937 (-) 195 WP_013714026.1 DNA gyrase inhibitor YacG -
  MDS_RS04435 (MDS_0884) coaE 973934..974542 (-) 609 WP_013714027.1 dephospho-CoA kinase -
  MDS_RS04440 (MDS_0885) pilD 974731..975597 (-) 867 WP_085982453.1 A24 family peptidase Machinery gene
  MDS_RS04445 (MDS_0886) pilC 975601..976821 (-) 1221 WP_013714029.1 type II secretion system F family protein Machinery gene
  MDS_RS04450 (MDS_0887) pilB 976825..978525 (-) 1701 WP_041769664.1 type IV-A pilus assembly ATPase PilB Machinery gene
  MDS_RS26250 (MDS_0888) - 978753..978938 (+) 186 WP_003242736.1 type IV pilin protein -
  MDS_RS25670 - 978950..979408 (+) 459 WP_147285547.1 hypothetical protein -
  MDS_RS26255 pilA 979497..979676 (+) 180 WP_041769344.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  MDS_RS04465 (MDS_0889) - 979849..980553 (+) 705 WP_115299238.1 hypothetical protein -
  MDS_RS04470 (MDS_0890) - 980556..981395 (+) 840 WP_013714032.1 hypothetical protein -
  MDS_RS04475 (MDS_0891) - 981392..982303 (+) 912 WP_013714033.1 ABC transporter ATP-binding protein -
  MDS_RS04480 (MDS_0892) nadC 982411..983259 (-) 849 WP_013714034.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62175.98 Da        Isoelectric Point: 5.3331

>NTDB_id=40395 MDS_RS04450 WP_041769664.1 976825..978525(-) (pilB) [Ectopseudomonas mendocina NK-01]
MSDTAQLTGLARQLVNASLLDERTASQAFAQALRNKIPLVSYLVQNKLASSRAVAEIAAEQFGVPYFDLSAVDKEHQPRD
LVSEKLCRQHRVLPLYRRGNKLFIALSDPTNHQALTDVQFSTGISTEALLVEDDKLGDALDKFFDSGNSGMEDLADVDLD
GLDVEAVNDEADDAGAGGDADDAPVVRFINKMLLDAIKGGSSDLHFEPYEKAYRVRFRTDGMLHEVARPPIQLASRLSAR
LKVMAQLDISERRRPQDGRIKMKVSKTKAIDFRVNTLPTLWGEKIVMRILDPTSAQMGIDALGYEEEQKELYLTALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTTDINISTAEDPVEINLEGINQVNVNPKHGMDFAQALRAFLRQDPDVIMVGEIRD
LETAEIAIKAAQTGHMVMSTLHTNSAAETLTRLRNMGVPAFNIATSVNLIIAQRLARKLCSCKKEVELPREALLKEGFPE
NKIGSFKLYAPNGCDNCKGGYKGRVGIYEVVKITPSLQRIIMEEGNSIEIAAQAKADGFNDLRTSGLFKAMQGITSLEEV
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=40395 MDS_RS04450 WP_041769664.1 976825..978525(-) (pilB) [Ectopseudomonas mendocina NK-01]
ATGAGCGATACCGCCCAACTCACCGGCCTCGCACGCCAACTGGTAAATGCCAGCCTTCTCGACGAACGCACTGCCAGCCA
GGCTTTTGCCCAGGCACTACGTAACAAGATCCCGCTGGTGTCGTATCTGGTACAAAACAAGCTGGCATCGAGCCGAGCCG
TTGCCGAGATTGCCGCTGAGCAGTTCGGCGTCCCCTACTTCGACCTGAGCGCGGTGGATAAAGAGCATCAGCCGAGGGAC
CTCGTCAGCGAAAAGCTGTGCCGCCAGCATCGTGTACTGCCGCTTTACCGCCGCGGCAACAAGCTGTTTATCGCCCTGTC
CGACCCTACCAATCACCAGGCGTTGACCGATGTGCAGTTCAGCACGGGCATCAGCACCGAAGCGTTACTGGTCGAGGACG
ACAAGCTGGGCGATGCACTGGATAAATTTTTCGATTCTGGCAACAGCGGCATGGAAGATCTTGCCGATGTAGACCTGGAC
GGATTGGACGTCGAAGCTGTCAATGACGAGGCGGACGATGCCGGAGCCGGCGGCGATGCCGACGACGCGCCAGTGGTGCG
CTTCATCAACAAGATGCTGCTCGATGCCATCAAGGGTGGCTCCTCCGACCTGCACTTTGAGCCGTATGAAAAAGCCTATC
GCGTCCGCTTTCGTACCGACGGCATGCTGCATGAGGTGGCTCGCCCACCCATCCAGTTAGCCAGCCGCCTTTCCGCTCGC
CTGAAGGTCATGGCCCAACTGGATATTTCCGAACGGCGCAGGCCTCAGGACGGCCGCATCAAGATGAAGGTATCCAAGAC
CAAGGCCATCGATTTTCGCGTCAACACCCTGCCCACCCTCTGGGGTGAGAAGATCGTGATGCGGATTCTTGATCCTACCA
GTGCACAGATGGGCATCGATGCCCTGGGTTATGAAGAGGAGCAGAAAGAGCTCTACCTGACGGCACTCAAACAGCCGCAA
GGCATGATCCTGGTCACGGGCCCGACCGGTTCCGGAAAAACGGTATCGCTTTATACAGGCCTGAACATTCTCAACACCAC
AGACATCAACATTTCCACCGCGGAAGACCCGGTGGAAATCAACCTGGAAGGTATCAACCAGGTCAACGTCAACCCTAAGC
ACGGCATGGACTTCGCCCAAGCCCTGCGCGCCTTCCTGCGTCAGGACCCGGACGTAATCATGGTCGGTGAGATTCGCGAC
CTGGAGACGGCCGAGATCGCCATCAAGGCCGCCCAGACCGGCCACATGGTAATGTCCACCCTGCACACCAACAGCGCAGC
GGAAACCCTGACCCGTCTACGCAATATGGGCGTACCTGCATTCAACATCGCCACTTCTGTGAACCTGATCATCGCTCAGC
GCCTGGCCCGCAAACTTTGCAGTTGCAAGAAAGAAGTAGAGCTACCGCGTGAAGCCCTGCTGAAAGAGGGGTTTCCTGAA
AACAAGATTGGCAGTTTCAAACTTTACGCCCCCAACGGCTGCGACAATTGCAAAGGCGGCTATAAAGGAAGGGTGGGGAT
TTATGAAGTAGTTAAAATCACGCCTTCCCTGCAACGCATTATCATGGAGGAAGGCAACTCCATCGAAATCGCCGCGCAGG
CGAAAGCCGACGGCTTCAACGATCTCCGTACTTCCGGGCTCTTCAAGGCGATGCAAGGCATCACCAGCCTGGAGGAAGTC
AACCGCGTGACCAAGGATTAA

Domains

Predicted by InterproScan.

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

(43-147)

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 baumannii D1279779

59.474

100

0.599
  pilB Acinetobacter baylyi ADP1

58.865

99.647

0.587
  pilB Legionella pneumophila strain ERS1305867

54.77

100

0.548
  pilF Neisseria gonorrhoeae MS11

50.524

100

0.511
  pilB Vibrio cholerae strain A1552

50.709

99.647

0.505
  pilB Vibrio campbellii strain DS40M4

49.554

99.117

0.491
  pilB Vibrio parahaemolyticus RIMD 2210633

51.782

94.17

0.488
  pilF Thermus thermophilus HB27

37.766

99.647

0.376
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40

92.756

0.371

Multiple sequence alignment