Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NYP20_RS25035 Genome accession   NZ_CP103965
Coordinates   5700831..5702531 (+) Length   566 a.a.
NCBI ID   WP_259496699.1    Uniprot ID   -
Organism   Pseudomonas sp. N3-W     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5695831..5707531
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NYP20_RS25015 (NYP20_25015) - 5695914..5698865 (+) 2952 WP_259496691.1 DUF748 domain-containing protein -
  NYP20_RS25020 (NYP20_25020) - 5698865..5699164 (+) 300 WP_259496693.1 DUF2845 domain-containing protein -
  NYP20_RS25025 (NYP20_25025) - 5699479..5699832 (-) 354 WP_259496696.1 BON domain-containing protein -
  NYP20_RS25030 (NYP20_25030) - 5700189..5700605 (-) 417 WP_259496697.1 pilin -
  NYP20_RS25035 (NYP20_25035) pilB 5700831..5702531 (+) 1701 WP_259496699.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NYP20_RS25040 (NYP20_25040) pilC 5702534..5703751 (+) 1218 WP_259496700.1 type II secretion system F family protein Machinery gene
  NYP20_RS25045 (NYP20_25045) pilD 5703753..5704625 (+) 873 WP_259496702.1 A24 family peptidase Machinery gene
  NYP20_RS25050 (NYP20_25050) coaE 5704622..5705245 (+) 624 WP_259496703.1 dephospho-CoA kinase -
  NYP20_RS25055 (NYP20_25055) yacG 5705242..5705442 (+) 201 WP_259496704.1 DNA gyrase inhibitor YacG -
  NYP20_RS25060 (NYP20_25060) - 5705455..5705670 (-) 216 WP_259496705.1 hypothetical protein -
  NYP20_RS25065 (NYP20_25065) - 5705736..5706425 (-) 690 WP_259496707.1 energy-coupling factor ABC transporter permease -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62913.94 Da        Isoelectric Point: 5.8555

>NTDB_id=726678 NYP20_RS25035 WP_259496699.1 5700831..5702531(+) (pilB) [Pseudomonas sp. N3-W]
MNDIALSGLAKQLVLAELLTDKSAQQAYQQAQRNRISLVSYLVQNKLVRSRQVAEIASEHFGMALMDLNCLDKETQPKGL
VSEKLVRQHHALPLWRRGNKLFVGISDPTNHQAINDIQFSTGLNTEAILVEDDKLSDAIEKFFDTHTTGLEDMADVDLDG
MDVESIDDRQQDAIAGQDSDDAPVVRFVHKMLLDAIKSGSSDLHFEPYEKTFRVRVRTDGILREVAKPPIQLAGRIAARL
KVMASLDISERRRPQDGRIKLRLSKNKSIDFRVNTLPTLWGEKVVIRILDPSSAQMGIDALGYEPEQKELFMAALRQPQG
MILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPKQGMDFAQALRSFLRQDPDVIMVGEIRDL
ETADIAIRAAQTGHMVLSTLHTNSAAETLTRLHNMGIAGFNIATSVSLIIAQRLARKLCSHCKTPIDIPREALLKEGFPE
ERIGSFTIYEPVGCDQCNNGYKGRTGIYEVVKNTSELQRLIMAEGNSLEINLQMRKDGFDDLRTCGLRKAMQGITSLEEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=726678 NYP20_RS25035 WP_259496699.1 5700831..5702531(+) (pilB) [Pseudomonas sp. N3-W]
ATGAATGACATCGCCCTCAGCGGCCTGGCCAAGCAATTGGTGCTGGCCGAGCTGCTCACTGACAAAAGCGCGCAACAGGC
GTATCAGCAAGCCCAACGCAATCGCATTTCCCTGGTCAGTTATCTGGTGCAGAACAAGCTGGTGAGAAGCCGCCAGGTCG
CCGAGATTGCCTCAGAGCATTTCGGCATGGCCCTCATGGATCTCAACTGCCTGGACAAGGAAACCCAGCCCAAAGGCCTG
GTCAGCGAAAAACTGGTGCGTCAGCATCACGCATTGCCCCTCTGGCGGCGCGGCAACAAGCTGTTCGTGGGGATTTCCGA
CCCGACCAATCACCAGGCCATCAACGACATCCAGTTCAGCACGGGGCTCAATACCGAGGCCATCCTGGTCGAGGACGACA
AACTCAGCGACGCCATCGAGAAGTTCTTCGATACCCACACCACCGGCCTGGAAGATATGGCCGACGTTGACCTCGATGGC
ATGGACGTCGAATCGATCGACGATCGGCAACAGGACGCCATCGCGGGCCAGGACTCCGATGACGCGCCGGTCGTGCGTTT
TGTCCACAAGATGTTGCTCGATGCGATCAAAAGCGGGTCCTCCGACCTGCACTTCGAGCCCTACGAAAAAACCTTCCGGG
TCCGGGTGCGCACCGACGGCATCCTGCGCGAAGTCGCCAAGCCGCCAATCCAACTGGCGGGGCGTATTGCTGCCCGACTC
AAGGTCATGGCCAGTCTCGACATTTCCGAACGCCGGCGGCCTCAGGACGGGCGGATCAAGCTGCGCCTGTCCAAGAACAA
ATCCATCGATTTTCGGGTCAACACGCTGCCAACCCTATGGGGCGAAAAAGTGGTGATCCGGATCCTCGACCCCTCCAGCG
CGCAAATGGGCATCGACGCCCTCGGCTACGAGCCCGAACAAAAAGAACTGTTCATGGCAGCACTCAGGCAGCCGCAAGGG
ATGATCCTGGTCACCGGTCCCACCGGCTCGGGCAAAACCGTCTCGCTGTACACCGGGCTGAATATTCTCAATACCGTGGA
CATCAACATCTCCACCGCCGAAGACCCGGTGGAAATCAACATGGAAGGCATTAATCAGGTCAACGTCAATCCCAAGCAGG
GAATGGATTTTGCCCAGGCCCTGCGCTCGTTTCTGCGTCAGGACCCGGACGTGATCATGGTCGGTGAAATCCGCGACCTG
GAAACCGCCGATATCGCCATCAGGGCTGCCCAGACCGGGCACATGGTGCTCTCGACCCTGCACACCAACAGCGCCGCGGA
AACCCTGACCCGTCTGCACAACATGGGCATCGCGGGTTTCAACATCGCCACCTCGGTCAGCCTGATCATTGCCCAGCGCC
TGGCGCGCAAACTGTGCAGCCATTGCAAGACGCCTATCGACATACCGCGAGAGGCGCTGCTCAAGGAAGGCTTTCCCGAG
GAACGCATTGGCTCGTTCACGATCTATGAGCCGGTCGGTTGTGATCAATGCAATAACGGCTACAAGGGACGGACCGGGAT
TTATGAAGTAGTGAAAAACACCTCCGAGCTGCAACGGCTGATCATGGCCGAAGGCAACTCACTGGAAATCAACCTTCAAA
TGCGCAAGGACGGCTTTGACGACCTGCGCACCTGCGGCCTGCGCAAGGCCATGCAAGGCATCACCAGCCTGGAAGAAATC
AACCGGGTCACCAAGGACTGA

Domains

Predicted by InterproScan.

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

(42-146)

Type II/IV secretion system protein (T2SSE)

(190-457)


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

57.904

99.47

0.576
  pilB Acinetobacter baumannii D1279779

57.092

99.647

0.569
  pilB Legionella pneumophila strain ERS1305867

54.69

99.823

0.546
  pilB Vibrio cholerae strain A1552

49.735

99.823

0.496
  pilF Neisseria gonorrhoeae MS11

49.378

99.47

0.491
  pilB Vibrio campbellii strain DS40M4

48.246

100

0.486
  pilB Vibrio parahaemolyticus RIMD 2210633

49.281

98.233

0.484
  pilF Thermus thermophilus HB27

36.106

99.823

0.36
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.563

93.463

0.36