Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   C6H38_RS24275 Genome accession   NZ_LT963402
Coordinates   5091923..5093617 (+) Length   564 a.a.
NCBI ID   WP_060412774.1    Uniprot ID   -
Organism   Pseudomonas syringae pv. avii isolate CFBP3846     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5086923..5098617
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C6H38_RS24250 (CFBP3846_04654) gstA 5087236..5087856 (-) 621 WP_060412775.1 glutathione transferase GstA -
  C6H38_RS24255 (CFBP3846_04655) - 5088014..5088370 (+) 357 WP_057417281.1 winged helix-turn-helix transcriptional regulator -
  C6H38_RS24260 (CFBP3846_04656) - 5088451..5089737 (-) 1287 WP_058417677.1 polysaccharide biosynthesis C-terminal domain-containing protein -
  C6H38_RS24265 (CFBP3846_04657) - 5089846..5091084 (-) 1239 WP_080395287.1 O-antigen ligase family protein -
  C6H38_RS24270 - 5091314..5091697 (-) 384 WP_080395286.1 pilin -
  C6H38_RS24275 (CFBP3846_04659) pilB 5091923..5093617 (+) 1695 WP_060412774.1 type IV-A pilus assembly ATPase PilB Machinery gene
  C6H38_RS24280 (CFBP3846_04660) pilC 5093620..5094837 (+) 1218 WP_060412773.1 type II secretion system F family protein Machinery gene
  C6H38_RS24285 (CFBP3846_04661) pilD 5094839..5095711 (+) 873 WP_058417675.1 prepilin peptidase Machinery gene
  C6H38_RS24290 (CFBP3846_04662) coaE 5095708..5096331 (+) 624 WP_057418267.1 dephospho-CoA kinase -
  C6H38_RS24295 (CFBP3846_04663) yacG 5096328..5096537 (+) 210 WP_003381207.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62504.85 Da        Isoelectric Point: 6.2561

>NTDB_id=1148826 C6H38_RS24275 WP_060412774.1 5091923..5093617(+) (pilB) [Pseudomonas syringae pv. avii isolate CFBP3846]
MSDAVLTGLAKQLVLAELLTETAAQQAYQQARRDKVSLVSYLVQNKLVKSLTLAEMASDQFGVPFMDLAGLDKESQPKGL
VSEKLVRQHHALPLWRRGNKLFIGISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTVAIDRFFDTESGLGELADIDLGLD
IEPASDKETSLANQSDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKNKAIDFRMNTLPILWGEKIVMRILDPTSAQIGIDALGYEPEQKALYMEALKLPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIREGFPEEK
IGTFKIYGPVGCEHCNGGYRGRVGIYEVVKKTPELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=1148826 C6H38_RS24275 WP_060412774.1 5091923..5093617(+) (pilB) [Pseudomonas syringae pv. avii isolate CFBP3846]
ATGTCTGATGCTGTCCTCACCGGTTTGGCCAAACAATTGGTCCTGGCCGAGCTACTTACTGAAACCGCTGCGCAGCAGGC
TTACCAACAGGCACGCCGCGACAAGGTTTCACTGGTGAGCTATCTGGTCCAGAACAAACTGGTCAAAAGCCTGACGCTTG
CAGAAATGGCCTCTGACCAGTTTGGCGTGCCCTTCATGGACCTTGCCGGTCTGGACAAGGAAAGCCAGCCCAAGGGGCTG
GTCAGTGAAAAGCTGGTCCGTCAGCATCATGCGTTGCCGCTGTGGCGACGCGGTAACAAGCTGTTTATAGGCATCTCGGA
CCCGACCAACCACCAGGCCGTCACAGACATACAGTTCAGCACCGGCCTGAATACCGAAGCGATTCTGGTTGAAGATGACA
AGCTGACCGTTGCCATAGACCGTTTTTTTGACACTGAAAGCGGCCTTGGCGAGTTGGCAGACATCGACCTTGGCCTTGAT
ATCGAGCCTGCGAGTGACAAGGAAACGTCGCTGGCAAATCAGAGTGATGCCGATGATGCCCCGGTCGTGCGCTTCGTCAA
CAAGATGCTGATGGACGCCATACGGCTCGGTTCGTCCGACCTGCACTTTGAACCCTACGAAAAGATCTTTCGCGTGCGCC
TGCGTACCGACGGCATTTTGCATGAAGTGGCCAGGCCACCGATCCATCTGGCCAACCGGATTGCTGCACGGCTTAAGGTA
ATGGCCAGTCTCGATATCTCTGAGCGGCGCAAACCGCAGGACGGCAGGGTCAAGCTGCGAGTGTCAAAAAACAAAGCGAT
CGACTTCCGCATGAACACGCTGCCCATACTGTGGGGCGAGAAGATCGTGATGCGGATTCTCGACCCGACCAGCGCGCAGA
TAGGTATTGATGCACTGGGCTACGAACCGGAGCAAAAGGCGCTTTATATGGAGGCCTTGAAACTGCCCCAAGGCATGATT
CTTGTCACCGGCCCAACCGGGTCAGGCAAAACCGTTTCGCTATACACCGGTCTGAACATTCTCAACACTGTAGACATCAA
CATTTCCACAGCTGAAGACCCGGTAGAGATCAACCTGGAGGGTATCAACCAGGTCAATGTCAATCCGCGACAGGGCCTGG
ACTTTTCCCAGGCATTGCGTGCCTTTCTGCGTCAAGATCCCGACGTGATCATGGTTGGAGAAATTCGAGACCTGGAAACG
GCCGAAATTGCCATCAAAGCCTCGCAAACCGGTCACATGGTGTTATCGACCCTGCACACCAACAGCGCTGCAGAAACCCT
GACTCGCCTCCACCATATGGGCGTCGCAGCGTTCAACATCGCTACGGCAATCAACCTTATCATTGCCCAGCGGCTGGCAC
GCAAGCTATGCAGTCATTGCAAGAAAGAACTCGACATACCTCGTGAAACACTCATACGAGAGGGCTTCCCGGAAGAAAAG
ATAGGTACGTTCAAAATCTACGGCCCTGTTGGCTGTGAGCATTGCAATGGCGGCTACAGGGGCAGGGTCGGGATCTACGA
AGTAGTCAAGAAAACACCTGAACTGGAACGCATCATCATGGAAGAAGGCAATTCGCTGGAGATTTCCAGGCAGATGCGAA
AGGACGGCTTCAACGATTTGAGGACCTCCGGCCTGTCGAAGGCCATGCAAGGCATCACCAGCCTTGAGGAAGTTAACCGC
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

58.333

100

0.583
  pilB Acinetobacter baylyi ADP1

57.117

99.645

0.569
  pilB Legionella pneumophila strain ERS1305867

55.044

100

0.551
  pilB Vibrio cholerae strain A1552

50.446

99.468

0.502
  pilB Vibrio parahaemolyticus RIMD 2210633

50

98.227

0.491
  pilB Vibrio campbellii strain DS40M4

48.936

100

0.489
  pilF Neisseria gonorrhoeae MS11

47.95

99.468

0.477
  pilF Thermus thermophilus HB27

39.223

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.279

93.44

0.367

Multiple sequence alignment