Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   K5621_RS02025 Genome accession   NZ_AP024618
Coordinates   428462..430168 (-) Length   568 a.a.
NCBI ID   WP_221050287.1    Uniprot ID   -
Organism   Shewanella carassii strain TUM17387     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 423462..435168
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K5621_RS19975 - 423781..424029 (-) 249 Protein_367 transposase -
  K5621_RS01995 (TUM17387_03730) mutT 424109..424504 (-) 396 WP_188726048.1 8-oxo-dGTP diphosphatase MutT -
  K5621_RS02000 (TUM17387_03740) yacG 424507..424719 (-) 213 WP_100142958.1 DNA gyrase inhibitor YacG -
  K5621_RS02005 (TUM17387_03750) zapD 424764..425504 (-) 741 WP_100142959.1 cell division protein ZapD -
  K5621_RS02010 (TUM17387_03760) coaE 425501..426112 (-) 612 WP_100142960.1 dephospho-CoA kinase -
  K5621_RS02015 (TUM17387_03770) pilD 426113..427027 (-) 915 WP_100142961.1 A24 family peptidase Machinery gene
  K5621_RS02020 (TUM17387_03780) pilC 427108..428376 (-) 1269 WP_221050286.1 type II secretion system F family protein Machinery gene
  K5621_RS02025 (TUM17387_03790) pilB 428462..430168 (-) 1707 WP_221050287.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K5621_RS02030 (TUM17387_03800) - 430177..430629 (-) 453 WP_221050288.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  K5621_RS02035 (TUM17387_03810) nadC 431497..432357 (-) 861 WP_100142965.1 carboxylating nicotinate-nucleotide diphosphorylase -
  K5621_RS02040 (TUM17387_03820) ampD 432580..433125 (+) 546 WP_221050289.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  K5621_RS02045 (TUM17387_03830) ampE 433179..434030 (+) 852 WP_221050290.1 beta-lactamase regulator AmpE -
  K5621_RS02050 (TUM17387_03840) pdhR 434232..434984 (+) 753 WP_221050291.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62853.03 Da        Isoelectric Point: 5.1792

>NTDB_id=86671 K5621_RS02025 WP_221050287.1 428462..430168(-) (pilB) [Shewanella carassii strain TUM17387]
MPTTGLHLGLSTLFIRKGLLDESSLAEAIKQSQKDKQALVTTLVASKLLSARSIAELCYEEYGTPLLDLNEFDLGSIPEE
FLNKKLIDKHRCLPLFKRGNRLYIATSDPTNIAALEDFQFSAGLHAEAILVEEDKLAKALEKVLEEDLSSLELDGLDEES
LAGIEVTDTDKRPEDNSEGKDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLSGRISAR
LKVMSKLDIAERRVPQDGRIKMRLSRNKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEEDQKQAYLEMLARPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINTKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSSAETLTRLLNMGVPGYNIASSINLIIAQRLARRLCPECRQPEEIPEHELLQLGFS
QQQIDAGFTPYKPCGCELCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIAATAKQQGMRDLRLSGLLKVIQGVTSIA
EVNRVTSY

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=86671 K5621_RS02025 WP_221050287.1 428462..430168(-) (pilB) [Shewanella carassii strain TUM17387]
ATGCCCACCACCGGCCTCCATTTAGGATTATCGACCCTATTTATCCGTAAGGGGCTGCTCGATGAGAGCAGCCTGGCGGA
GGCCATCAAGCAGTCGCAAAAAGACAAGCAAGCCCTGGTCACCACCCTGGTGGCCAGTAAGCTTTTATCTGCCCGCAGCA
TAGCCGAGCTCTGTTATGAGGAGTACGGCACCCCACTGCTGGATCTCAACGAGTTCGATCTCGGCAGCATTCCGGAAGAG
TTTCTCAACAAGAAACTGATCGACAAGCACCGCTGCCTGCCGCTGTTTAAGCGCGGCAACCGCCTCTATATCGCCACCTC
GGATCCCACCAATATCGCCGCCCTGGAAGACTTTCAGTTCAGCGCCGGCCTGCATGCCGAGGCGATACTGGTCGAAGAGG
ACAAATTAGCCAAGGCGCTGGAAAAAGTGCTGGAAGAGGACTTGAGTTCGCTGGAGCTCGATGGCCTCGACGAAGAGTCC
CTCGCCGGCATTGAAGTCACCGACACCGACAAGCGTCCGGAAGACAACAGCGAAGGCAAAGACGATGCCCCCATCGTCAT
CTATATCAATAAAATTCTCACCGATGCCATCCGCAAGGGGGCGTCGGATCTGCACTTCGAACCCTACGAGAAGCGCTATC
GCATCCGTTTCCGTATCGATGGCATACTCCATGAGGTGTCCGAGCCGCCGATTTCACTTTCCGGGCGGATATCGGCGCGA
CTGAAGGTGATGTCCAAGCTGGATATCGCCGAGCGCCGGGTGCCTCAGGATGGTCGCATCAAGATGAGGCTGTCGCGCAA
CAAGAGCATCGACTTTCGGGTCAGCACCCTGCCCACCCTCTGGGGCGAAAAGATAGTGATGCGGATCCTCGACTCCTCTT
CCGCGCAGTTGGGGATCGAAAAACTCGGTTATGAGGAAGACCAGAAACAAGCCTATCTGGAGATGCTGGCAAGACCCCAG
GGAATGATCCTGGTCACAGGCCCCACGGGTTCGGGAAAAACCGTGTCCCTCTATACCGGCCTCAATATTCTCAACACCGA
AGAGCGCAATATCAGTACCGCCGAAGATCCGGTAGAGATCAACCTCGAAGGGGTCAACCAGGTACATATCAACACCAAGG
CCGGGTTAACCTTCGCCTCGGCACTGCGCTCCTTCCTGCGTCAGGATCCGGACGTGGTGATGGTGGGGGAAATTCGCGAT
CTGGAAACCGCCGAAATCGCCATCAAGGCGGCACAAACCGGCCACTTGGTGCTCTCGACCCTGCACACCAACTCATCGGC
CGAAACCCTCACCCGCCTGCTCAACATGGGCGTACCCGGTTATAACATTGCCAGCTCGATCAATCTGATCATTGCCCAGC
GCCTGGCGCGCCGTCTCTGCCCCGAGTGTCGGCAACCGGAGGAGATCCCCGAACATGAGTTGCTGCAGCTGGGCTTCAGC
CAGCAACAGATAGATGCGGGCTTTACCCCTTATAAACCTTGTGGCTGCGAGCTCTGCTCCGGCGGTTATAAGGGCCGGGT
CGGCATTTATGAGGTGATGAAGATGTCCGATGAAATAGCTCGAACCATTATGGAAGGCGGTAATTCACTGCAAATTGCCG
CCACCGCCAAACAACAGGGCATGCGCGATCTACGTTTGTCGGGCTTACTGAAGGTGATCCAGGGGGTCACCAGCATTGCC
GAGGTCAACCGGGTAACCAGTTATTGA

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

58.259

99.12

0.577
  pilB Acinetobacter baylyi ADP1

58.289

98.768

0.576
  pilB Legionella pneumophila strain ERS1305867

56.184

99.648

0.56
  pilB Vibrio parahaemolyticus RIMD 2210633

53.158

100

0.533
  pilB Vibrio cholerae strain A1552

53.058

97.887

0.519
  pilB Vibrio campbellii strain DS40M4

51.51

99.12

0.511
  pilF Neisseria gonorrhoeae MS11

48.496

99.472

0.482
  pilF Thermus thermophilus HB27

38.339

99.648

0.382
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.775

93.838

0.373
  pilB/pilB1 Synechocystis sp. PCC 6803

41.082

87.852

0.361

Multiple sequence alignment