Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   K5M76_RS01930 Genome accession   NZ_CP091833
Coordinates   442276..443985 (-) Length   569 a.a.
NCBI ID   WP_055648721.1    Uniprot ID   -
Organism   Shewanella xiamenensis strain HD6452     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 437276..448985
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K5M76_RS01900 (K5M76_01900) mutT 437518..437913 (-) 396 WP_259476012.1 8-oxo-dGTP diphosphatase MutT -
  K5M76_RS01905 (K5M76_01905) yacG 438000..438209 (-) 210 WP_037413634.1 DNA gyrase inhibitor YacG -
  K5M76_RS01910 (K5M76_01910) zapD 438319..439053 (-) 735 WP_037413632.1 cell division protein ZapD -
  K5M76_RS01915 (K5M76_01915) coaE 439046..439663 (-) 618 WP_144375700.1 dephospho-CoA kinase -
  K5M76_RS01920 (K5M76_01920) pilD 439804..440730 (-) 927 WP_259476014.1 A24 family peptidase Machinery gene
  K5M76_RS01925 (K5M76_01925) pilC 440885..442156 (-) 1272 WP_188871158.1 type II secretion system F family protein Machinery gene
  K5M76_RS01930 (K5M76_01930) pilB 442276..443985 (-) 1710 WP_055648721.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K5M76_RS01935 (K5M76_01935) - 444902..445732 (+) 831 WP_259476016.1 O-antigen ligase -
  K5M76_RS01940 (K5M76_01940) - 445776..446204 (-) 429 WP_310795048.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  K5M76_RS01945 (K5M76_01945) nadC 446808..447689 (-) 882 WP_259476018.1 carboxylating nicotinate-nucleotide diphosphorylase -
  K5M76_RS01950 (K5M76_01950) ampD 447927..448472 (+) 546 WP_218677978.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62712.19 Da        Isoelectric Point: 6.2148

>NTDB_id=653796 K5M76_RS01930 WP_055648721.1 442276..443985(-) (pilB) [Shewanella xiamenensis strain HD6452]
MPSAGLHLGLSTLFIRKGLLNEEQMASAITKSRQNKQTLVTTLVQTKLVSARSIAELCYEEYGTPLLDLAEFDVSAIPEE
FLNKKLIEKHRCLPLFKRGNRLYIATSDPTNIAALEEFQFSAGLHAEAILVEEDKLAKALEKILEEDITGLDLSGMDEAA
LAGIEITDTDKRNEDNAGESSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQPEQIPEHELKRLGF
SDAQIAQGFITYKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIAAQAKAQGMRDLRQSGLLKVLQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=653796 K5M76_RS01930 WP_055648721.1 442276..443985(-) (pilB) [Shewanella xiamenensis strain HD6452]
ATGCCATCCGCTGGCCTTCACCTGGGATTATCCACCCTTTTCATCCGTAAAGGTCTGCTTAATGAAGAGCAGATGGCGAG
TGCCATCACCAAATCCCGCCAAAACAAACAAACTTTAGTCACTACCTTAGTGCAGACTAAGCTCGTGTCGGCCCGCAGTA
TTGCCGAGCTTTGCTATGAGGAATATGGCACTCCGCTGTTGGATTTAGCCGAATTTGATGTAAGTGCAATACCAGAAGAG
TTTCTGAATAAAAAACTGATTGAAAAACACCGCTGCTTACCGCTATTTAAGCGCGGCAATCGCCTCTATATCGCCACTTC
CGACCCCACAAATATTGCCGCCCTTGAGGAATTCCAATTTAGTGCCGGCCTACATGCTGAAGCGATTTTGGTGGAAGAAG
ATAAGCTCGCTAAGGCCCTTGAAAAGATACTAGAAGAAGATATTACTGGCCTTGATTTAAGCGGCATGGATGAAGCAGCG
CTTGCTGGTATCGAAATTACCGATACCGATAAACGCAATGAAGACAATGCTGGTGAATCCAGTGACGATGCCCCTATCGT
CATTTATATCAATAAGATATTAACCGATGCCATTCGTAAGGGCGCTTCAGACTTACATTTTGAGCCCTATGAAAAACGCT
ATCGTATCCGTTTTCGTATCGATGGTATTTTGCATGAAGTCTCCGAGCCGCCAATCAGCCTAGCCGGACGACTCTCAGCG
CGCTTAAAGGTAATGTCAAAGCTCGATATTGCCGAGCGTCGCGTCCCCCAGGATGGCCGGATTAAAATGAAGCTATCCCG
CACTAAGTCTATCGACTTTCGGGTAAGTACCCTGCCGACTCTGTGGGGCGAAAAAATTGTAATGCGGATCTTGGATTCTT
CTTCCGCACAGCTCGGCATCGAAAAACTCGGTTACGAGCCGGATCAAGAAAAGCTCTACCTTGAGATGCTGGCCAAACCC
CAGGGCATGATATTAGTGACAGGCCCAACGGGCTCGGGTAAAACCGTTTCGCTTTATACAGGCTTAAATATCCTCAATAC
CGCCGAGCGTAATATTTCTACCGCCGAAGATCCGGTGGAAATTAACCTTGAGGGGGTAAACCAAGTCCATATTAATTTAA
AAGCGGGTTTAACCTTCGCCTCGGCACTGCGCTCCTTTTTACGCCAAGACCCCGATGTGGTGATGGTCGGGGAAATCCGT
GACCTTGAAACCGCCGAAATTGCCATTAAAGCCGCGCAAACTGGCCACTTAGTATTATCAACCCTGCATACCAACTCGGC
GGCAGAAACGCTCACCCGTTTAATTAATATGGGCGTCCCCGGCTATAATATTGCCAGCTCAGTCAATTTAATTATTGCTC
AGCGACTTGCACGGCGACTTTGCCCTGAATGCAAGCAACCCGAACAAATACCTGAACATGAGCTAAAGCGTTTAGGCTTT
AGTGATGCGCAAATAGCCCAAGGGTTTATCACCTATAAACCCGTGGGTTGTGAGCATTGTTCTGGTGGCTATAAAGGACG
GGTAGGTATTTACGAAGTGATGAAGATGTCAGATGAAATTGCCCGTACTATTATGGAAGGGGGTAATTCATTACAAATTG
CAGCCCAAGCCAAGGCCCAAGGCATGCGCGATCTGCGGCAATCAGGACTACTAAAAGTGCTCCAAGGTGTTACCAGTATT
GCCGAAGTGAATCGGGTAACCAGTTTTTAA

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

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

59.893

98.594

0.591
  pilB Acinetobacter baumannii D1279779

59.266

95.782

0.568
  pilB Legionella pneumophila strain ERS1305867

56.94

98.77

0.562
  pilB Vibrio parahaemolyticus RIMD 2210633

51.839

100

0.52
  pilB Vibrio cholerae strain A1552

52.603

97.891

0.515
  pilB Vibrio campbellii strain DS40M4

51.06

99.473

0.508
  pilF Neisseria gonorrhoeae MS11

49.293

99.473

0.49
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.464

98.418

0.388
  pilF Thermus thermophilus HB27

38.681

98.594

0.381
  pilB/pilB1 Synechocystis sp. PCC 6803

41

87.873

0.36