Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   D0436_RS19825 Genome accession   NZ_CP031775
Coordinates   4545788..4547500 (+) Length   570 a.a.
NCBI ID   WP_208661341.1    Uniprot ID   A0A5B8QTT2
Organism   Shewanella decolorationis strain Ni1-3     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4540788..4552500
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D0436_RS19805 (D0436_02970) ampD 4541457..4542002 (-) 546 WP_208661343.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  D0436_RS19810 (D0436_02965) nadC 4542252..4543133 (+) 882 WP_140907504.1 carboxylating nicotinate-nucleotide diphosphorylase -
  D0436_RS19815 (D0436_02960) - 4543583..4543996 (+) 414 WP_302852168.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  D0436_RS19820 (D0436_24170) - 4544044..4545471 (-) 1428 WP_216832051.1 O-antigen ligase -
  D0436_RS19825 (D0436_02950) pilB 4545788..4547500 (+) 1713 WP_208661341.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D0436_RS19830 (D0436_02945) pilC 4547583..4548854 (+) 1272 WP_208661339.1 type II secretion system F family protein Machinery gene
  D0436_RS19835 (D0436_02940) pilD 4548982..4549908 (+) 927 WP_208661337.1 A24 family peptidase Machinery gene
  D0436_RS19840 (D0436_02935) coaE 4549972..4550589 (+) 618 WP_208661334.1 dephospho-CoA kinase -
  D0436_RS19845 (D0436_02930) zapD 4550582..4551316 (+) 735 WP_208661332.1 cell division protein ZapD -
  D0436_RS19850 (D0436_02925) yacG 4551424..4551633 (+) 210 WP_011621218.1 DNA gyrase inhibitor YacG -
  D0436_RS19855 (D0436_02920) mutT 4551668..4552060 (+) 393 WP_208661330.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 570 a.a.        Molecular weight: 62829.17 Da        Isoelectric Point: 5.7391

>NTDB_id=311150 D0436_RS19825 WP_208661341.1 4545788..4547500(+) (pilB) [Shewanella decolorationis strain Ni1-3]
MPSAGLHLGLSTLFIRKGLLNEEQMASAITKSRQNKQTLVTTLVQTKLVSARSIAELCYEEYGTPLLDLAEFDISAIPEE
FLNKKLIEKHRCLPLFKRGNRLYIATSDPTNIAALEEFQFSAGLHAEAILVEEDKLAKALEKVLEEDITGLDLSGMDEAA
LAGIEVTDTDKRNEDNAGESSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQPEQIPEHELQRLGF
TDEQIAQGFTTFKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIADQAKAQGMRDLRQSGLLKVVQGVTSI
AEVNRVTSFG

Nucleotide


Download         Length: 1713 bp        

>NTDB_id=311150 D0436_RS19825 WP_208661341.1 4545788..4547500(+) (pilB) [Shewanella decolorationis strain Ni1-3]
ATGCCATCCGCTGGCCTTCACCTGGGATTATCCACCCTTTTCATCCGTAAAGGTCTGCTTAATGAAGAGCAGATGGCAAG
TGCCATCACTAAATCCCGCCAAAACAAACAAACCTTAGTCACTACCTTAGTGCAGACCAAGCTAGTGTCGGCCCGCAGCA
TTGCCGAGCTTTGCTATGAAGAATACGGCACCCCGCTGCTGGATTTAGCCGAATTTGATATTAGTGCCATTCCCGAAGAG
TTTCTTAACAAAAAACTGATTGAAAAGCATCGCTGCTTGCCGCTTTTTAAACGTGGTAATCGCCTCTATATCGCCACCTC
CGACCCAACCAATATTGCCGCCCTTGAGGAATTCCAATTTAGTGCTGGGTTGCATGCCGAAGCGATTTTGGTGGAAGAAG
ATAAACTCGCCAAAGCCCTTGAAAAGGTATTAGAAGAAGATATTACTGGCCTTGATTTAAGCGGGATGGATGAGGCAGCA
CTTGCTGGTATTGAAGTTACCGATACCGATAAACGCAATGAAGACAATGCTGGTGAATCCAGTGACGATGCACCCATTGT
TATCTATATCAATAAGATATTAACCGATGCCATTCGTAAGGGCGCCTCAGACTTACATTTTGAGCCCTATGAAAAACGCT
ATCGTATCCGTTTTCGTATCGATGGTATTTTGCATGAAGTCTCCGAACCGCCCATTAGTTTAGCTGGGCGACTCTCGGCG
CGCTTAAAGGTAATGTCAAAGCTGGATATTGCCGAGCGCCGCGTTCCCCAAGATGGCCGGATTAAAATGAAGCTGTCCCG
CACTAAGTCAATTGACTTTCGGGTGAGCACACTACCGACCCTTTGGGGCGAAAAAATTGTAATGCGGATATTGGATTCCT
CTTCCGCCCAGCTCGGTATCGAAAAACTCGGTTACGAACCCGATCAAGAAAAGCTTTACCTTGAGATGCTAGCCAAACCC
CAGGGCATGATATTAGTGACTGGCCCGACGGGGTCGGGTAAAACCGTTTCGCTCTACACAGGCTTAAATATCCTCAATAC
CGCCGAGCGTAATATTTCCACCGCCGAAGATCCGGTGGAAATTAACCTTGAGGGGGTAAACCAAGTCCATATTAATTTAA
AAGCGGGTTTAACCTTCGCCTCGGCACTACGTTCGTTTTTGCGTCAAGACCCCGATGTGGTGATGGTCGGTGAAATTCGT
GACCTTGAAACCGCCGAAATTGCCATTAAAGCCGCGCAAACTGGCCACTTAGTATTATCAACCCTGCATACTAACTCGGC
TGCAGAAACGCTCACCCGTTTAATTAATATGGGCGTACCCGGCTATAATATTGCCAGCTCAGTTAATTTAATTATTGCTC
AGCGCCTTGCACGGCGGCTTTGCCCAGAATGCAAACAACCCGAACAGATACCCGAACATGAACTACAACGCTTAGGCTTT
ACCGATGAGCAAATCGCTCAAGGGTTTACCACCTTTAAACCTGTGGGTTGTGAACATTGTTCTGGTGGCTATAAAGGACG
GGTAGGTATTTACGAAGTGATGAAGATGTCAGATGAAATTGCCCGTACTATTATGGAAGGGGGCAATTCATTGCAGATAG
CAGATCAAGCCAAGGCTCAAGGCATGCGCGACCTGCGTCAGTCAGGGCTGCTAAAGGTCGTCCAAGGTGTTACCAGTATT
GCCGAAGTCAATCGGGTTACGAGCTTTGGTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(192-459)

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

(43-144)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A5B8QTT2

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

60.428

98.421

0.595
  pilB Acinetobacter baumannii D1279779

59.45

95.614

0.568
  pilB Legionella pneumophila strain ERS1305867

56.228

98.596

0.554
  pilB Vibrio parahaemolyticus RIMD 2210633

52.014

100

0.521
  pilB Vibrio cholerae strain A1552

53.333

97.368

0.519
  pilB Vibrio campbellii strain DS40M4

51.237

99.298

0.509
  pilF Neisseria gonorrhoeae MS11

49.47

99.298

0.491
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.247

97.895

0.384
  pilF Thermus thermophilus HB27

37.679

98.246

0.37
  pilB/pilB1 Synechocystis sp. PCC 6803

41.434

88.07

0.365

Multiple sequence alignment