Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   N023_RS03950 Genome accession   NZ_CP093321
Coordinates   893152..894846 (-) Length   564 a.a.
NCBI ID   WP_024664613.1    Uniprot ID   -
Organism   Pseudomonas syringae CC440     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 888152..899846
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N023_RS03925 (N023_03925) - 889641..890099 (+) 459 WP_024664609.1 hypothetical protein -
  N023_RS03930 (N023_03930) yacG 890232..890441 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  N023_RS03935 (N023_03935) coaE 890438..891061 (-) 624 WP_024664610.1 dephospho-CoA kinase -
  N023_RS03940 (N023_03940) pilD 891058..891930 (-) 873 WP_024664611.1 A24 family peptidase Machinery gene
  N023_RS03945 (N023_03945) pilC 891932..893149 (-) 1218 WP_024664612.1 type II secretion system F family protein Machinery gene
  N023_RS03950 (N023_03950) pilB 893152..894846 (-) 1695 WP_024664613.1 type IV-A pilus assembly ATPase PilB Machinery gene
  N023_RS03955 (N023_03955) - 895070..895498 (+) 429 WP_024664614.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  N023_RS03960 (N023_03960) - 895966..896487 (+) 522 WP_024664615.1 glutathione binding-like protein -
  N023_RS03965 (N023_03965) - 896729..897421 (+) 693 WP_032623610.1 DUF433 domain-containing protein -
  N023_RS03970 (N023_03970) - 897418..897825 (+) 408 WP_024664617.1 hypothetical protein -
  N023_RS03975 (N023_03975) - 897870..898415 (-) 546 WP_024664618.1 DUF1523 family protein -
  N023_RS03980 (N023_03980) - 898535..899533 (+) 999 WP_024664619.1 ATP-grasp domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62484.69 Da        Isoelectric Point: 6.3339

>NTDB_id=663527 N023_RS03950 WP_024664613.1 893152..894846(-) (pilB) [Pseudomonas syringae CC440]
MTDAVLTGLAKQLVLAELLTETVAQQAYQHARRDKVSLVSYLVQSKLVKSLTLAEMASEQFGVPFMDLASLDRESQPKGL
VSEKLVRQHHALPLWRRGNKLFIGISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTTAIDRFFDSDSGLGNLEDVDLGLD
IEPADGKETSLSTQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIKEGFPEAE
IGKFKVYGPVGCEHCNGGYRGRVGIYEVVKKTSELERIIMEEGNSLEISRQMRKDGFSDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=663527 N023_RS03950 WP_024664613.1 893152..894846(-) (pilB) [Pseudomonas syringae CC440]
ATGACTGATGCTGTCCTCACTGGCTTGGCCAAGCAACTGGTCCTCGCCGAGCTGCTTACCGAAACTGTTGCGCAGCAGGC
TTATCAGCATGCGCGTCGCGACAAGGTTTCGTTGGTGAGCTATCTGGTTCAGAGCAAGCTGGTCAAAAGTCTGACGCTGG
CGGAGATGGCTTCCGAGCAGTTTGGCGTGCCGTTTATGGATCTGGCCAGTCTGGACAGGGAAAGCCAGCCTAAAGGGCTG
GTCAGTGAAAAGCTGGTTCGACAGCATCATGCGCTGCCGCTGTGGCGACGCGGCAATAAACTGTTTATAGGGATTTCGGA
CCCTACGAATCATCAGGCGGTGACTGATATTCAGTTCAGCACAGGTCTGAACACCGAAGCGATTCTGGTCGAAGATGACA
AGCTGACTACAGCGATAGATCGGTTCTTTGACAGTGATAGCGGGCTGGGCAACCTAGAAGACGTGGATCTGGGTCTGGAT
ATCGAACCGGCTGATGGCAAGGAAACTTCCCTCTCTACGCAGAATGACGCAGACGATGCTCCGGTGGTGCGCTTCGTCAA
CAAAATGTTGATGGACGCTATCCGACTAGGATCGTCCGACCTGCATTTTGAACCTTACGAAAAGATCTTCCGAGTGCGGT
TGCGTACCGATGGCATCTTGCATGAAGTTGCCAGACCACCAATTCATTTGGCGAACCGTATTGCCGCGCGCTTGAAAGTA
ATGGCAAGCCTCGATATCTCGGAAAGGCGCAAACCGCAGGACGGAAGGGTCAAGTTGCGGGTGTCCAAAACAAAGGCCAT
CGATTTTCGTATGAATACCTTGCCCACACTGTGGGGCGAAAAGATCGTGATGCGGATCCTCGACCCGACCAGCGCTCAGA
TGGGTATCGATGCGCTGGGCTATGAGCCAGAACAAAAGGCTTTGTATCTGGAGGCGCTGAAGCAGCCGCAAGGTATGATT
CTTGTAACCGGCCCGACAGGCTCCGGCAAGACCGTGTCCCTGTATACCGGCCTGAATATCCTTAATACCGTGGATATCAA
CATTTCCACAGCTGAAGACCCGGTAGAGATCAACCTGGAAGGCATCAATCAGGTCAACGTCAACCCGCGCCAGGGACTGG
ACTTTTCCCAAGCCTTGCGCGCATTTTTGCGTCAAGATCCCGACGTGATCATGGTCGGCGAGATACGAGACCTGGAAACT
GCCGAAATCGCCATCAAAGCTTCGCAGACTGGCCATATGGTGCTTTCCACACTGCACACCAACAGCGCGGCGGAAACATT
GACTCGCCTGCACCATATGGGCGTTGCAGCATTCAATATTGCAACAGCAATCAACCTCATTATTGCGCAACGACTTGCAA
GAAAGTTATGTAGCCATTGCAAGAAAGAGCTCGATATTCCTCGCGAGACACTGATTAAGGAAGGCTTCCCAGAGGCGGAA
ATTGGCAAGTTCAAGGTATATGGCCCTGTAGGTTGCGAGCACTGCAATGGTGGCTACAGGGGAAGGGTAGGTATTTACGA
AGTAGTCAAAAAAACATCGGAGCTTGAGCGTATCATCATGGAAGAGGGAAACTCACTGGAGATTTCCAGGCAAATGCGCA
AGGACGGCTTCAGTGACCTGCGCACTTCAGGTCTGTCAAAAGCAATGCAGGGCATCACCAGTTTGGAAGAAGTCAACCGC
GTGACCAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(42-147)


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

57.42

100

0.576
  pilB Acinetobacter baylyi ADP1

56.007

100

0.562
  pilB Legionella pneumophila strain ERS1305867

55.221

100

0.553
  pilB Vibrio cholerae strain A1552

50.712

99.645

0.505
  pilB Vibrio parahaemolyticus RIMD 2210633

50.36

98.582

0.496
  pilB Vibrio campbellii strain DS40M4

49.381

100

0.495
  pilF Neisseria gonorrhoeae MS11

48.577

99.645

0.484
  pilF Thermus thermophilus HB27

39.223

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.163

93.262

0.365