Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HF896_RS05280 Genome accession   NZ_CP051298
Coordinates   1064187..1065926 (-) Length   579 a.a.
NCBI ID   WP_013721478.1    Uniprot ID   -
Organism   Alicycliphilus denitrificans strain DP3     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1059187..1070926
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HF896_RS05250 (HF896_05250) - 1059901..1060326 (+) 426 WP_013517803.1 NUDIX domain-containing protein -
  HF896_RS05255 (HF896_05255) - 1060389..1060595 (-) 207 WP_013517804.1 DNA gyrase inhibitor YacG -
  HF896_RS05260 (HF896_05260) zapD 1060597..1061352 (-) 756 WP_013517805.1 cell division protein ZapD -
  HF896_RS05265 (HF896_05265) coaE 1061435..1062049 (-) 615 WP_013517806.1 dephospho-CoA kinase -
  HF896_RS05270 (HF896_05270) pilD 1062070..1062948 (-) 879 WP_013517807.1 A24 family peptidase Machinery gene
  HF896_RS05275 (HF896_05275) pilC 1062948..1064165 (-) 1218 WP_013517808.1 type II secretion system F family protein Machinery gene
  HF896_RS05280 (HF896_05280) pilB 1064187..1065926 (-) 1740 WP_013721478.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HF896_RS05285 (HF896_05285) - 1066346..1067581 (+) 1236 WP_059400198.1 site-specific integrase -
  HF896_RS05290 (HF896_05290) - 1067578..1068105 (+) 528 WP_059400197.1 hypothetical protein -
  HF896_RS05295 (HF896_05295) - 1068235..1068474 (+) 240 WP_059400196.1 hypothetical protein -
  HF896_RS05300 (HF896_05300) - 1068474..1068644 (+) 171 WP_168727761.1 hypothetical protein -
  HF896_RS05305 (HF896_05305) - 1068959..1069474 (+) 516 WP_059400195.1 hypothetical protein -
  HF896_RS05310 (HF896_05310) - 1069471..1069707 (+) 237 WP_059400194.1 hypothetical protein -

Sequence

Protein


Download         Length: 579 a.a.        Molecular weight: 63548.78 Da        Isoelectric Point: 5.9306

>NTDB_id=437313 HF896_RS05280 WP_013721478.1 1064187..1065926(-) (pilB) [Alicycliphilus denitrificans strain DP3]
MASADIAQKVAQPVALPGLARALMSVGKLNQKTAEEIYKKSQTTRTSFIAELTESNAITSSDLAHTVSSIFGAPLVDVEA
LDRQRLPKDLLDFKLCQAYRVVPLGKRSNRLIVATADPTNQEAAEKIKFTTQMGVDWIVAEYHKLIQLVDATAKSGSETL
DSIVNSGDFEFGDISVEEASEENSEAASNEVEDAPVVRFLHKMLLDAFNMRASDLHFEPYEHNYRVRFRIDGELREIASP
PIAIKEKLASRIKVISRLDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSAKMGIDALGYEPEEK
ERLLQAISRPYGMILVTGPTGSGKTVSLYTCLNLLNKPGVNIATAEDPSEINLPGVNQVNVNEKAGLTFATALKAFLRQD
PDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCPQCKAPADI
PHETLLEAGYKEEEIDGSWVTYRPVGCSACNNGYKGRVGIYQVMPVSEETQRIILRDGSALDIAKQARQEGVRSLRESGL
HKAKMGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1740 bp        

>NTDB_id=437313 HF896_RS05280 WP_013721478.1 1064187..1065926(-) (pilB) [Alicycliphilus denitrificans strain DP3]
ATGGCTTCCGCAGACATCGCACAGAAAGTTGCTCAACCCGTCGCGCTACCCGGCCTGGCGCGCGCACTGATGTCCGTGGG
CAAGCTGAACCAGAAAACCGCCGAGGAAATCTACAAGAAGTCACAAACGACGCGCACCAGCTTCATTGCCGAACTGACCG
AGTCCAACGCGATCACCTCCAGCGACCTCGCCCACACGGTGTCCTCCATCTTCGGGGCGCCGCTGGTGGATGTGGAGGCG
CTCGACCGCCAGCGCCTGCCGAAGGATTTGCTGGATTTCAAGCTGTGCCAGGCCTACCGGGTGGTTCCCCTGGGCAAGCG
CAGCAACCGCCTGATCGTGGCAACGGCCGACCCGACCAACCAGGAAGCCGCGGAAAAGATCAAGTTCACCACGCAGATGG
GCGTGGACTGGATCGTGGCCGAATACCACAAGCTGATCCAGCTGGTGGACGCTACCGCAAAGAGCGGCAGCGAGACCCTT
GACAGCATCGTCAACAGCGGCGACTTCGAGTTTGGCGACATCTCCGTCGAGGAAGCCTCGGAGGAGAACTCGGAGGCCGC
ATCGAACGAGGTCGAGGACGCGCCCGTCGTCAGGTTCCTGCACAAGATGCTGCTGGACGCGTTCAACATGCGCGCATCCG
ACCTGCACTTCGAGCCGTACGAGCACAACTACCGCGTGCGTTTTCGCATCGACGGCGAGCTCAGGGAAATCGCATCCCCA
CCGATCGCCATCAAGGAGAAGCTGGCATCGCGCATCAAGGTGATCTCCCGCCTGGACATCTCGGAAAAACGCGTGCCGCA
GGACGGCCGCATGAAGCTCAAGGTGGGGCCGGACCGCGTGATCGATTTCCGCGTGAGCACCCTGCCCACGCTCTTCGGCG
AAAAGATCGTGATCCGTATCCTCGATCCGAGCAGCGCCAAGATGGGCATCGACGCGCTCGGCTACGAACCCGAGGAGAAG
GAGCGTCTGCTCCAGGCCATCAGCCGGCCCTATGGCATGATCCTGGTGACGGGTCCCACGGGGTCGGGCAAGACGGTGTC
GCTCTACACCTGCCTGAATCTGCTGAACAAGCCCGGTGTCAACATCGCCACGGCGGAGGACCCCTCGGAAATCAACCTGC
CGGGCGTGAACCAGGTGAACGTGAACGAAAAGGCGGGGCTGACCTTCGCCACGGCCCTGAAGGCGTTCCTGCGCCAGGAT
CCGGACATCATCATGGTGGGCGAAATCCGCGACCTGGAGACTGCCGACATCTCCATCAAGGCCGCCCAGACGGGCCACCT
GGTGCTGTCCACGCTGCACACCAACGACGCGCCGACCACGCTCACGCGCATGCGCAACATGGGCATCGCGCCCTTCAACA
TCGCCTCCAGCGTGATCCTGATCACCGCGCAGCGGCTGGCGCGGCGCCTGTGCCCCCAGTGCAAGGCGCCGGCCGACATA
CCGCACGAGACCCTGCTGGAGGCAGGCTACAAGGAAGAAGAGATCGACGGCTCCTGGGTCACCTACCGACCCGTCGGCTG
CTCGGCCTGCAACAACGGGTACAAGGGCCGCGTGGGCATCTACCAGGTGATGCCGGTGTCCGAGGAGACCCAGCGCATCA
TCCTGCGCGACGGCAGCGCCCTGGACATTGCCAAGCAGGCCCGCCAGGAGGGCGTGCGCAGCCTGCGCGAGTCGGGGCTG
CACAAGGCGAAGATGGGATTGACCTCTCTGGAAGAGGTCCTGGCCGTCACCAACGAATAA

Domains

Predicted by InterproScan.

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

(52-152)

Type II/IV secretion system protein (T2SSE)

(202-469)


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

52.265

99.136

0.518
  pilB Acinetobacter baumannii D1279779

52.931

97.237

0.515
  pilF Neisseria gonorrhoeae MS11

51.59

97.755

0.504
  pilB Legionella pneumophila strain ERS1305867

49.558

97.582

0.484
  pilB Vibrio parahaemolyticus RIMD 2210633

46.032

97.927

0.451
  pilB Vibrio cholerae strain A1552

45.234

99.655

0.451
  pilB Vibrio campbellii strain DS40M4

45.487

97.582

0.444
  pilF Thermus thermophilus HB27

40.105

98.618

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.075

92.228

0.37