Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RDV53_RS06545 Genome accession   NZ_CP133470
Coordinates   1324802..1326181 (-) Length   459 a.a.
NCBI ID   WP_005695509.1    Uniprot ID   -
Organism   Haemophilus parainfluenzae ATCC 33392 strain DSM 8978     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1319802..1331181
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDV53_RS06510 (RDV53_06510) mreD 1319834..1320322 (+) 489 WP_005695501.1 rod shape-determining protein MreD -
  RDV53_RS06515 (RDV53_06515) rhlB 1320363..1321622 (-) 1260 WP_005695503.1 ATP-dependent RNA helicase RhlB -
  RDV53_RS06520 (RDV53_06520) - 1321712..1321993 (-) 282 WP_032822874.1 GNAT family N-acetyltransferase -
  RDV53_RS06525 (RDV53_06525) yacG 1321990..1322196 (-) 207 WP_005695505.1 DNA gyrase inhibitor YacG -
  RDV53_RS06530 (RDV53_06530) coaE 1322186..1322809 (-) 624 WP_005695506.1 dephospho-CoA kinase -
  RDV53_RS06535 (RDV53_06535) pilD 1322896..1323573 (-) 678 WP_005695507.1 A24 family peptidase Machinery gene
  RDV53_RS06540 (RDV53_06540) pilC 1323570..1324793 (-) 1224 WP_005695508.1 type II secretion system F family protein Machinery gene
  RDV53_RS06545 (RDV53_06545) pilB 1324802..1326181 (-) 1380 WP_005695509.1 GspE/PulE family protein Machinery gene
  RDV53_RS06550 (RDV53_06550) pilA 1326188..1326631 (-) 444 WP_005697917.1 prepilin peptidase-dependent pilin Machinery gene
  RDV53_RS06555 (RDV53_06555) ampD 1326774..1327337 (+) 564 WP_005695512.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  RDV53_RS06560 (RDV53_06560) rppH 1327822..1328415 (+) 594 WP_005695513.1 RNA pyrophosphohydrolase -
  RDV53_RS06565 (RDV53_06565) - 1328415..1329209 (+) 795 WP_005695514.1 sulfite exporter TauE/SafE family protein -
  RDV53_RS06570 (RDV53_06570) lgt 1329218..1330027 (+) 810 WP_005695515.1 prolipoprotein diacylglyceryl transferase -
  RDV53_RS06575 (RDV53_06575) - 1330038..1330889 (+) 852 WP_005695516.1 thymidylate synthase -

Sequence

Protein


Download         Length: 459 a.a.        Molecular weight: 52151.54 Da        Isoelectric Point: 6.4484

>NTDB_id=874447 RDV53_RS06545 WP_005695509.1 1324802..1326181(-) (pilB) [Haemophilus parainfluenzae ATCC 33392 strain DSM 8978]
MAYQAIAKNGEIYHISPQYWQQNQQQQALLLRYFALPLKEDEHHLWLAVDSLNNLAACETFAFLSGKLVEPILFETTQLK
QLLQSLAPKANQIEDQTTFYHHSEDENAANLSNEDEPVIQLLNSIFETALQKNASDIHLETQPSGLLIRLRIDGVLQPQP
VISKAFANRVISRLKLLAKLDISETRLPQDGRFQFKTTFSDILDFRLSTLPTHWGEKAVLRLQQNKPVQLSFAELGMTQK
QQIQFQHALSQPQGLILVTGPTGSGKSISLYTALQWLNTPDKHIMTAEDPVEIELEGIIQTQVNPQIGLDFSRLLRTFLR
QDPDIIMLGEIRDEESALMALRAAQTGHLVLSTLHTNDAISAISRLQQLGIQSHEIENSLLLVIAQRLVRKRCLKCGQHF
SDSCDCHQGYRGRIGVYQFLQCKNNRYQTDFDSLYQSALEKVKDHITDLDEIQRVLGKK

Nucleotide


Download         Length: 1380 bp        

>NTDB_id=874447 RDV53_RS06545 WP_005695509.1 1324802..1326181(-) (pilB) [Haemophilus parainfluenzae ATCC 33392 strain DSM 8978]
ATGGCCTATCAAGCAATCGCAAAAAATGGCGAGATTTATCATATCTCGCCACAATATTGGCAACAAAACCAACAGCAACA
AGCTTTACTGTTGCGTTACTTTGCGCTCCCTCTTAAAGAAGACGAACACCATTTATGGCTTGCGGTGGATTCGCTAAATA
ATCTTGCAGCTTGTGAAACCTTTGCTTTTTTAAGTGGAAAATTAGTTGAACCGATTTTATTTGAAACGACTCAACTCAAA
CAACTTTTACAATCCCTTGCCCCTAAAGCCAATCAAATAGAAGACCAAACAACGTTTTATCATCATTCTGAAGACGAAAA
CGCTGCTAATTTATCTAATGAAGATGAACCCGTTATTCAATTATTAAATAGTATTTTTGAAACAGCCCTACAAAAAAATG
CCTCCGATATTCATTTAGAAACTCAGCCAAGTGGACTCTTAATTCGTTTACGTATTGATGGCGTACTACAGCCACAGCCG
GTAATCAGTAAAGCGTTCGCCAATCGTGTGATTTCTCGTTTAAAACTCTTAGCTAAACTGGATATCAGTGAAACTCGGCT
ACCACAAGATGGCCGCTTTCAATTCAAAACCACGTTCTCCGATATTTTAGATTTCCGCCTTTCTACCTTGCCCACACATT
GGGGAGAAAAAGCGGTATTACGATTACAACAAAATAAACCAGTTCAGTTAAGTTTTGCTGAACTTGGCATGACACAAAAG
CAACAAATCCAATTTCAACACGCGCTCAGCCAACCTCAAGGTTTAATTCTTGTAACTGGACCAACAGGAAGCGGAAAAAG
TATCTCGCTTTATACCGCACTTCAATGGCTCAATACGCCAGATAAACATATTATGACAGCAGAAGATCCCGTTGAAATTG
AATTAGAAGGTATTATTCAAACTCAAGTGAATCCGCAAATCGGTTTAGATTTTAGCCGATTACTTCGTACATTTTTACGA
CAAGATCCCGACATTATTATGCTTGGTGAAATTCGAGATGAAGAAAGTGCATTGATGGCATTAAGAGCCGCTCAAACCGG
CCATTTAGTGCTTTCTACCTTACATACCAACGATGCCATCTCAGCGATTTCACGCTTGCAACAACTAGGCATTCAATCTC
ACGAAATTGAAAACAGTCTCTTATTAGTTATCGCACAACGATTGGTGCGTAAACGTTGCTTAAAGTGCGGTCAACATTTC
AGTGATTCTTGCGATTGCCATCAGGGATACCGAGGTCGAATTGGGGTATATCAATTTTTACAATGCAAAAACAATCGCTA
CCAAACTGATTTCGATTCACTTTATCAAAGCGCGTTAGAAAAAGTAAAAGATCACATCACCGATCTCGATGAGATTCAAC
GCGTGTTAGGCAAAAAATAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(124-391)

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

(26-88)


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 Haemophilus influenzae 86-028NP

78.097

98.475

0.769
  pilB Haemophilus influenzae Rd KW20

77.434

98.475

0.763
  pilB Glaesserella parasuis strain SC1401

59.735

98.475

0.588
  pilB Vibrio campbellii strain DS40M4

40.909

100

0.431
  pilB Vibrio cholerae strain A1552

40.702

100

0.429
  pilB Vibrio parahaemolyticus RIMD 2210633

40.625

100

0.425
  pilB Legionella pneumophila strain ERS1305867

38.855

100

0.414
  pilB Acinetobacter baumannii D1279779

38.604

100

0.41
  pilB Acinetobacter baylyi ADP1

37.827

100

0.41
  pilF Neisseria gonorrhoeae MS11

36.975

100

0.383
  pilF Thermus thermophilus HB27

36.575

100

0.377
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

35.307

100

0.364