Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JM642_RS18530 Genome accession   NZ_CP069350
Coordinates   4224867..4226576 (+) Length   569 a.a.
NCBI ID   WP_203432320.1    Uniprot ID   -
Organism   Shewanella sp. LZH-2     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4219867..4231576
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JM642_RS18510 (JM642_18510) ampD 4220396..4220935 (-) 540 WP_203432318.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  JM642_RS18515 (JM642_18515) nadC 4221159..4222040 (+) 882 WP_088586229.1 carboxylating nicotinate-nucleotide diphosphorylase -
  JM642_RS18520 (JM642_18520) - 4222645..4223076 (+) 432 WP_275403229.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  JM642_RS18525 (JM642_18525) - 4223120..4224550 (-) 1431 WP_203432319.1 O-antigen ligase family protein -
  JM642_RS18530 (JM642_18530) pilB 4224867..4226576 (+) 1710 WP_203432320.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JM642_RS18535 (JM642_18535) pilC 4226696..4227967 (+) 1272 WP_188871158.1 type II secretion system F family protein Machinery gene
  JM642_RS18540 (JM642_18540) pilD 4228097..4229023 (+) 927 WP_047534372.1 A24 family peptidase Machinery gene
  JM642_RS18545 (JM642_18545) coaE 4229180..4229797 (+) 618 WP_099457088.1 dephospho-CoA kinase -
  JM642_RS18550 (JM642_18550) zapD 4229790..4230524 (+) 735 WP_203432321.1 cell division protein ZapD -
  JM642_RS18555 (JM642_18555) yacG 4230620..4230829 (+) 210 WP_037413634.1 DNA gyrase inhibitor YacG -
  JM642_RS18560 (JM642_18560) mutT 4230916..4231311 (+) 396 WP_203432322.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62712.15 Da        Isoelectric Point: 6.0579

>NTDB_id=534116 JM642_RS18530 WP_203432320.1 4224867..4226576(+) (pilB) [Shewanella sp. LZH-2]
MPSAGLHLGLSTLFIRKGLLNEEQMASAITKSRQNKQTLVTTLVQTKLVSARSIAELCYEEYGTPLLDLAEFDISAIPEE
FLNKKLIEKHRCLPLFKRGNRLYIATSDPTNIAALEEFQFSAGLHAEAILVEEDKLAKALEKVLEEDITGLDLSGMDEAA
LAGIEITDTDKRNEDNAGESSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQPEQIPEHELQRLGF
SDAQIAQGFITYKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIAAQAKAQGMRDLRQSGLLKVLQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=534116 JM642_RS18530 WP_203432320.1 4224867..4226576(+) (pilB) [Shewanella sp. LZH-2]
ATGCCATCCGCTGGCCTTCACCTGGGATTATCCACCCTTTTCATCCGTAAAGGTCTGCTTAATGAAGAGCAGATGGCGAG
TGCCATCACCAAATCCCGCCAAAATAAACAAACCTTAGTCACTACCTTAGTGCAGACTAAGCTCGTGTCGGCCCGCAGTA
TTGCAGAGCTTTGCTATGAGGAATATGGCACCCCGCTGCTGGATTTAGCCGAATTTGATATTAGTGCCATTCCCGAAGAG
TTTCTTAATAAAAAACTAATTGAAAAACACCGCTGCTTGCCGCTTTTTAAACGTGGTAATCGCCTGTATATCGCCACCTC
TGACCCAACCAATATTGCCGCCCTTGAGGAATTCCAATTTAGTGCTGGCCTACATGCCGAAGCCATTTTGGTGGAAGAAG
ATAAGCTCGCTAAAGCACTTGAAAAGGTACTCGAAGAAGATATTACTGGCCTTGATTTAAGCGGCATGGATGAAGCAGCG
CTTGCTGGTATCGAAATTACCGATACCGATAAACGCAATGAAGACAATGCTGGTGAATCCAGTGACGATGCCCCAATTGT
TATTTATATCAATAAGATATTAACCGATGCTATTCGTAAGGGCGCCTCAGACTTACATTTTGAGCCCTATGAAAAGCGCT
ATCGTATCCGTTTTCGTATCGATGGTATTTTGCATGAAGTCTCAGAGCCGCCAATCAGCCTAGCCGGACGACTCTCAGCG
CGCTTAAAGGTAATGTCAAAACTCGATATTGCCGAGCGCCGCGTCCCCCAGGATGGCCGGATTAAAATGAAGCTATCCCG
TACTAAGTCGATTGACTTTCGGGTAAGCACCCTGCCGACCCTGTGGGGCGAAAAAATTGTAATGCGGATATTGGACTCCT
CCTCCGCACAGCTCGGCATCGAAAAACTCGGTTACGAACCCGATCAAGAAAAGCTCTACCTTGAGATGCTAGCCAAACCC
CAAGGGATGATTCTGGTGACAGGCCCAACGGGTTCGGGTAAAACCGTTTCGCTCTATACAGGCTTAAATATCCTCAATAC
CGCCGAGCGTAATATTTCCACCGCCGAAGATCCGGTGGAAATTAACCTTGAGGGGGTAAACCAAGTCCATATTAATTTAA
AAGCGGGTTTAACCTTCGCCTCAGCACTACGTTCGTTTTTGCGACAAGACCCCGATGTGGTGATGGTCGGCGAAATCCGT
GACCTTGAAACCGCCGAAATTGCCATTAAAGCGGCGCAAACAGGCCACTTAGTTCTATCAACCCTGCATACTAACTCGGC
GGCAGAAACACTCACTCGTTTAATTAATATGGGCGTACCCGGCTATAATATTGCCAGCTCAGTCAATTTAATTATTGCTC
AGCGACTTGCACGGCGGCTTTGCCCAGAATGCAAACAACCCGAACAGATACCTGAACATGAGCTACAACGTTTAGGCTTT
AGTGATGCACAAATCGCCCAAGGGTTTATCACCTATAAACCCGTGGGTTGTGAGCATTGTTCTGGTGGCTATAAAGGACG
GGTAGGTATTTACGAAGTGATGAAGATGTCAGATGAAATTGCCCGTACTATTATGGAAGGGGGTAATTCATTACAAATTG
CTGCTCAAGCCAAGGCCCAAGGGATGCGCGACCTGCGGCAATCAGGGCTACTAAAAGTGCTTCAAGGTGTAACCAGTATT
GCCGAAGTGAATCGGGTAACCAGTTTTTAA

Domains

Predicted by InterproScan.

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

(43-144)

Type II/IV secretion system protein (T2SSE)

(192-459)


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

56.762

98.77

0.561
  pilB Vibrio parahaemolyticus RIMD 2210633

52.014

100

0.522
  pilB Vibrio cholerae strain A1552

53.153

97.54

0.518
  pilB Vibrio campbellii strain DS40M4

51.237

99.473

0.51
  pilF Neisseria gonorrhoeae MS11

49.117

99.473

0.489
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.286

98.418

0.387
  pilF Thermus thermophilus HB27

38.393

98.418

0.378
  pilB/pilB1 Synechocystis sp. PCC 6803

41

87.873

0.36