Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NYR62_RS04480 Genome accession   NZ_CP103809
Coordinates   1017405..1018799 (-) Length   464 a.a.
NCBI ID   WP_279476596.1    Uniprot ID   -
Organism   Actinobacillus genomosp. 1 strain CCUG22229     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1012405..1023799
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NYR62_RS04450 (NYR62_04450) lptE 1013017..1013511 (+) 495 WP_279476589.1 LPS assembly lipoprotein LptE -
  NYR62_RS04455 (NYR62_04455) holA 1013623..1014648 (+) 1026 WP_279476590.1 DNA polymerase III subunit delta -
  NYR62_RS04460 (NYR62_04460) yacG 1014725..1014913 (-) 189 WP_279458423.1 DNA gyrase inhibitor YacG -
  NYR62_RS04465 (NYR62_04465) coaE 1014895..1015533 (-) 639 WP_279476592.1 dephospho-CoA kinase -
  NYR62_RS04470 (NYR62_04470) - 1015554..1016198 (-) 645 WP_347710247.1 prepilin peptidase -
  NYR62_RS04475 (NYR62_04475) - 1016219..1017421 (-) 1203 WP_279476595.1 type II secretion system F family protein -
  NYR62_RS04480 (NYR62_04480) pilB 1017405..1018799 (-) 1395 WP_279476596.1 GspE/PulE family protein Machinery gene
  NYR62_RS04485 (NYR62_04485) pilA 1018817..1019263 (-) 447 WP_279476597.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  NYR62_RS04490 (NYR62_04490) radA 1019443..1020822 (+) 1380 WP_279458429.1 DNA repair protein RadA Machinery gene
  NYR62_RS04495 (NYR62_04495) - 1020866..1021099 (-) 234 WP_115589814.1 YgjV family protein -
  NYR62_RS04500 (NYR62_04500) folA 1021229..1021717 (-) 489 WP_279476598.1 type 3 dihydrofolate reductase -
  NYR62_RS04505 (NYR62_04505) proB 1021804..1022895 (+) 1092 WP_279458431.1 glutamate 5-kinase -
  NYR62_RS04510 (NYR62_04510) - 1022911..1023687 (+) 777 WP_279458432.1 TSUP family transporter -

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 52748.40 Da        Isoelectric Point: 5.8899

>NTDB_id=725223 NYR62_RS04480 WP_279476596.1 1017405..1018799(-) (pilB) [Actinobacillus genomosp. 1 strain CCUG22229]
MKYSVCDINSRQVLRISDERWQKNVEEGHILLRYLAVPIQEDEQILWLAIDDMNNLSACEIFAFIAHKRIEPVLVSSEEL
KYLLGQLMPEQQSVYEETELHYQSLEQTEHLDFNDPIIQVLDSLFKYSLKHNVSDIHLEPQKDNMLIRLRIDGVLHHYKS
LSIQLANRILSRIKLLAKLDISESRLPQDGQFSFKTALSETLDFRVSSLPTNWGEKVVLRLQKNKPTHFDFISLGFLAEQ
QEKLLQALRQPQGLILVTGPTGSGKSITLYSALDYLNDSKRHILTAEDPIEIELDGIIQTQVNPAINLGFSRLLRTFLRQ
DPDVIMLGEIRDQESAEIALSAAQTGHLVLSTLHTNDAPSAIERLLQLGIKEYEINNSLLLVIAQRLVRKLCTQCGGTGC
KHCYHGYNGRIGVYQLFSKNGKIFEKSTACLDFDNLYQSAQQRLNAGVTSLEEINRVLGNVESI

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=725223 NYR62_RS04480 WP_279476596.1 1017405..1018799(-) (pilB) [Actinobacillus genomosp. 1 strain CCUG22229]
ATGAAGTATTCGGTATGTGACATAAACAGTAGGCAAGTATTGCGGATCTCCGATGAACGATGGCAAAAAAATGTTGAGGA
AGGTCATATTCTATTACGTTATCTTGCCGTACCGATTCAGGAAGATGAGCAAATCTTGTGGCTTGCAATCGACGATATGA
ATAATCTCAGTGCTTGCGAAATTTTTGCTTTTATTGCTCATAAGCGAATTGAACCGGTATTGGTTTCCTCCGAAGAATTG
AAATATCTACTTGGACAATTAATGCCGGAACAACAGTCCGTATATGAAGAAACCGAACTGCACTATCAGTCTTTAGAACA
AACGGAACATTTGGATTTTAATGATCCTATTATTCAAGTGTTAGATAGCCTGTTTAAATACAGTTTAAAGCACAATGTCT
CGGATATTCATTTAGAACCGCAGAAAGACAATATGTTGATTCGATTACGTATTGACGGTGTGTTACATCACTATAAATCA
CTTTCTATTCAGCTTGCCAATCGTATTCTTTCTCGAATTAAATTATTAGCGAAACTCGATATTAGCGAATCTCGCCTTCC
GCAAGACGGGCAATTTAGCTTTAAAACCGCATTATCCGAAACATTGGATTTTCGCGTTTCAAGTTTACCGACTAATTGGG
GAGAGAAAGTGGTTTTGCGTTTACAAAAAAATAAGCCTACGCATTTCGATTTTATTTCCTTAGGCTTTTTAGCGGAACAG
CAAGAAAAACTATTACAGGCTCTGCGACAACCTCAAGGGCTAATACTGGTAACAGGGCCGACGGGCAGCGGTAAGAGTAT
TACGTTATACAGCGCATTAGATTATTTAAATGACAGTAAAAGGCATATTTTGACCGCGGAAGATCCCATTGAAATCGAGC
TTGATGGAATTATTCAAACGCAAGTAAATCCTGCGATAAATTTGGGTTTTAGTCGGTTATTGAGGACGTTTTTACGTCAA
GATCCGGATGTGATTATGTTAGGGGAGATTCGTGATCAAGAAAGTGCCGAAATAGCGTTGAGTGCGGCGCAAACCGGGCA
TTTGGTTCTCTCTACTTTGCACACTAATGATGCGCCTTCGGCAATTGAACGTTTATTACAACTCGGTATAAAAGAATATG
AAATTAATAATTCGTTATTACTTGTTATAGCGCAACGTTTAGTACGTAAATTATGTACTCAATGCGGCGGGACAGGATGT
AAACATTGTTATCACGGTTACAACGGGAGAATCGGCGTTTATCAGCTGTTTTCAAAAAATGGCAAAATTTTTGAAAAATC
GACCGCTTGTCTGGATTTTGACAATTTGTATCAAAGTGCGCAACAGAGACTAAACGCTGGCGTGACTTCATTGGAAGAAA
TTAACAGAGTATTAGGTAATGTCGAAAGTATATGA

Domains

Predicted by InterproScan.

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

(30-92)

Type II/IV secretion system protein (T2SSE)

(128-390)


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 Glaesserella parasuis strain SC1401

69.869

98.707

0.69
  pilB Haemophilus influenzae Rd KW20

57.871

97.198

0.562
  pilB Haemophilus influenzae 86-028NP

57.206

97.198

0.556
  pilB Acinetobacter baumannii D1279779

39.506

100

0.414
  pilB Vibrio campbellii strain DS40M4

39.04

100

0.403
  pilB Acinetobacter baylyi ADP1

38.477

100

0.403
  pilB Vibrio parahaemolyticus RIMD 2210633

38.831

100

0.401
  pilB Vibrio cholerae strain A1552

38.669

100

0.401
  pilB Legionella pneumophila strain ERS1305867

37.628

100

0.397
  pilF Neisseria gonorrhoeae MS11

35.504

100

0.364