Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   DSM104440_RS02065 Genome accession   NZ_CP053073
Coordinates   365204..366901 (+) Length   565 a.a.
NCBI ID   WP_171160344.1    Uniprot ID   A0A6M4H2B7
Organism   Usitatibacter palustris strain Swamp67     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 360204..371901
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DSM104440_RS02045 (DSM104440_00390) prmC 361228..362052 (-) 825 WP_212758173.1 peptide chain release factor N(5)-glutamine methyltransferase -
  DSM104440_RS02050 (DSM104440_00391) prfA 362054..363139 (-) 1086 WP_171160338.1 peptide chain release factor 1 -
  DSM104440_RS02055 (DSM104440_00392) hemA 363136..364404 (-) 1269 WP_171160340.1 glutamyl-tRNA reductase -
  DSM104440_RS02060 (DSM104440_00393) - 364543..365091 (+) 549 WP_171160342.1 glutathione peroxidase -
  DSM104440_RS02065 (DSM104440_00394) pilB 365204..366901 (+) 1698 WP_171160344.1 type IV-A pilus assembly ATPase PilB Machinery gene
  DSM104440_RS02070 (DSM104440_00395) pilC 366915..368144 (+) 1230 WP_171160346.1 type II secretion system F family protein Machinery gene
  DSM104440_RS02075 (DSM104440_00396) pilD 368201..369067 (+) 867 WP_171160348.1 A24 family peptidase Machinery gene
  DSM104440_RS02080 (DSM104440_00397) coaE 369064..369666 (+) 603 WP_171160351.1 dephospho-CoA kinase -
  DSM104440_RS02085 (DSM104440_00398) zapD 369672..370427 (+) 756 WP_171165602.1 cell division protein ZapD -
  DSM104440_RS02090 (DSM104440_00399) - 370424..370621 (+) 198 WP_212758175.1 DNA gyrase inhibitor YacG -
  DSM104440_RS02095 (DSM104440_00400) - 370653..371120 (+) 468 WP_171160353.1 DUF2244 domain-containing protein -

Sequence

Protein


Download         Length: 565 a.a.        Molecular weight: 61778.31 Da        Isoelectric Point: 5.0553

>NTDB_id=442731 DSM104440_RS02065 WP_171160344.1 365204..366901(+) (pilB) [Usitatibacter palustris strain Swamp67]
MSANPATFNALGRALVQQGRLVQADATAIQAEATKAGLMFVQQLIASKKLSAREVSQFAANTFGYPLLDLNAVDFDALPI
NLIDSKIVANRRVIALGKRGNRLFVAVSDPSNEQVMQEVKFATGMTMEPVVVEDDKLNNIVKRITEGGGKALEKMVEDVE
LPDEELEAQPDVVTEDIDDAPVVKYVTKILLDAINGGASDIHFEPFEKFYRIRYRTDGILYDVAQPPLAIKEKIASRIKV
VSKLDISEKRVPQDGRMKLTMSKTRAIDFRVSTLPTLFGEKICMRILDPSSATLGIDALGYDPDQKENLMNAITRPYGMV
LVTGPTGSGKTVSLYTCLNILNKPGINISTAEDPAEINLPGVNQVNINDKAGLSFPVALKAFLRQDPDIIMVGEIRDIET
GEISIKAAQTGHMVLSTLHTNDAPQTLTRLMNMGIAPFNIASSVIMVTAQRLARRLCTCKKPVDIPEEALLRAGFAEDQL
DGSWQPFAPGGCDLCKNTGYKGRLGIYQVMPISEEMERIIMKNGNAIDLADQAKRENIKDLRTSGLIKVMKGLTSLEEVE
GVTNE

Nucleotide


Download         Length: 1698 bp        

>NTDB_id=442731 DSM104440_RS02065 WP_171160344.1 365204..366901(+) (pilB) [Usitatibacter palustris strain Swamp67]
ATGTCCGCCAACCCCGCAACCTTCAATGCCCTTGGGCGAGCCCTCGTCCAGCAGGGCCGGCTTGTGCAAGCCGACGCGAC
GGCCATCCAGGCCGAAGCGACGAAGGCGGGGCTCATGTTCGTCCAGCAGTTGATCGCCTCGAAGAAGCTCAGCGCGCGCG
AAGTCTCGCAATTCGCCGCCAATACCTTCGGCTATCCGCTGCTCGACCTGAACGCGGTCGACTTCGACGCGCTGCCGATC
AACCTCATCGACAGCAAGATCGTCGCCAACCGGCGCGTGATCGCGCTGGGCAAGCGCGGCAACCGCCTGTTCGTCGCGGT
CTCGGATCCGTCCAACGAGCAGGTGATGCAGGAGGTGAAGTTCGCCACCGGCATGACGATGGAGCCGGTGGTCGTCGAGG
ACGACAAGCTCAACAACATCGTCAAGCGCATCACCGAGGGCGGCGGCAAGGCCCTCGAGAAGATGGTCGAGGACGTCGAG
CTTCCGGACGAGGAGCTCGAGGCCCAGCCCGACGTCGTCACCGAGGACATCGACGACGCGCCGGTCGTGAAGTACGTGAC
CAAGATCCTGCTCGACGCGATCAACGGCGGCGCCTCCGACATCCACTTCGAGCCGTTCGAGAAGTTCTACCGCATCCGCT
ACCGCACCGACGGCATCCTCTACGACGTGGCGCAGCCGCCGCTCGCGATCAAGGAAAAGATCGCCTCGCGCATCAAGGTG
GTCTCCAAGCTCGACATCTCGGAAAAGCGCGTGCCGCAGGACGGGCGGATGAAGCTCACGATGTCGAAGACGCGCGCGAT
CGACTTCCGCGTCTCGACGCTGCCGACACTCTTCGGCGAAAAGATTTGCATGCGGATCCTCGATCCGTCGAGCGCGACGC
TCGGGATCGACGCCCTGGGCTACGACCCGGACCAGAAGGAAAACCTGATGAACGCGATCACCCGCCCGTACGGCATGGTG
CTCGTGACCGGGCCCACGGGCTCGGGCAAGACGGTCTCGCTCTACACGTGCCTCAACATCCTCAACAAGCCCGGGATCAA
CATCTCGACGGCGGAGGATCCGGCGGAAATCAATTTGCCCGGCGTGAACCAGGTCAACATCAACGACAAGGCGGGTTTGA
GCTTCCCGGTCGCGCTGAAGGCCTTCCTGCGCCAGGACCCGGACATCATCATGGTGGGCGAGATCCGCGACATCGAGACG
GGCGAGATCTCGATCAAGGCCGCGCAGACGGGCCACATGGTGCTCTCCACGCTGCACACCAACGACGCGCCGCAAACGCT
CACGCGCCTCATGAACATGGGCATCGCGCCGTTCAACATCGCCTCGAGCGTGATCATGGTCACGGCGCAGCGGCTCGCGC
GGCGCCTGTGCACGTGCAAGAAGCCCGTGGACATTCCCGAGGAAGCGTTGCTTCGCGCGGGCTTCGCCGAGGATCAACTC
GATGGTTCATGGCAGCCGTTCGCGCCCGGTGGATGTGACCTGTGCAAGAATACGGGCTACAAAGGACGCCTCGGGATATA
CCAGGTGATGCCGATTTCCGAGGAAATGGAACGCATCATCATGAAGAACGGCAATGCGATCGATCTCGCCGACCAGGCAA
AGCGCGAGAACATCAAGGATCTGCGGACTTCGGGTTTGATCAAGGTGATGAAGGGCCTCACTTCCCTCGAGGAAGTCGAA
GGCGTCACCAACGAGTAG

Domains

Predicted by InterProScan.

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

(44-145)

Type II/IV secretion system protein (T2SSE)

(188-455)


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

52.496

100

0.54
  pilB Acinetobacter baumannii D1279779

52.837

99.823

0.527
  pilF Neisseria gonorrhoeae MS11

51.521

98.938

0.51
  pilB Legionella pneumophila strain ERS1305867

50.088

100

0.501
  pilB Vibrio cholerae strain A1552

45.714

99.115

0.453
  pilB Vibrio parahaemolyticus RIMD 2210633

44.306

99.469

0.441
  pilB Vibrio campbellii strain DS40M4

43.972

99.823

0.439
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.962

92.566

0.37
  pilF Thermus thermophilus HB27

36.898

99.292

0.366