Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HV560_RS06640 Genome accession   NZ_CP055305
Coordinates   1371693..1373093 (+) Length   466 a.a.
NCBI ID   WP_176812459.1    Uniprot ID   -
Organism   Mannheimia pernigra strain 17CN0883     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1366693..1378093
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HV560_RS06610 (HV560_06610) - 1366799..1367563 (-) 765 WP_176812456.1 TSUP family transporter -
  HV560_RS06615 (HV560_06615) proB 1367563..1368654 (-) 1092 WP_159629587.1 glutamate 5-kinase -
  HV560_RS06620 (HV560_06620) - 1368768..1369262 (+) 495 WP_159629590.1 dihydrofolate reductase -
  HV560_RS06625 (HV560_06625) - 1369390..1369623 (+) 234 WP_159629593.1 YgjV family protein -
  HV560_RS06630 (HV560_06630) radA 1369662..1371041 (-) 1380 WP_176812457.1 DNA repair protein RadA Machinery gene
  HV560_RS06635 (HV560_06635) pilA 1371222..1371671 (+) 450 WP_176812458.1 prepilin peptidase-dependent pilin Machinery gene
  HV560_RS06640 (HV560_06640) pilB 1371693..1373093 (+) 1401 WP_176812459.1 GspE/PulE family protein Machinery gene
  HV560_RS06645 (HV560_06645) pilC 1373077..1374270 (+) 1194 WP_176812460.1 type II secretion system F family protein Machinery gene
  HV560_RS06650 (HV560_06650) - 1374273..1374929 (+) 657 WP_176812461.1 prepilin peptidase -
  HV560_RS06655 (HV560_06655) coaE 1374961..1375599 (+) 639 WP_176812462.1 dephospho-CoA kinase -
  HV560_RS06660 (HV560_06660) yacG 1375581..1375766 (+) 186 WP_159629615.1 DNA gyrase inhibitor YacG -
  HV560_RS06665 (HV560_06665) holA 1375767..1376789 (-) 1023 WP_176812463.1 DNA polymerase III subunit delta -
  HV560_RS06670 (HV560_06670) lptE 1376830..1377318 (-) 489 WP_176812464.1 LPS assembly lipoprotein LptE -

Sequence

Protein


Download         Length: 466 a.a.        Molecular weight: 52743.51 Da        Isoelectric Point: 5.9563

>NTDB_id=457507 HV560_RS06640 WP_176812459.1 1371693..1373093(+) (pilB) [Mannheimia pernigra strain 17CN0883]
MAYSVTDLNSQQIIEISAEQWAKNGNEKQILLRYLAVPLRETESQLWLAIDDMQNLSACEIFAFIHHKQIEPVLISSDEL
KFLLNALSPEQSRLQSEIYEDNAAYSLSNAEQVDRNDPIIQILDNLFKFCLKNNASDIHLEPQKERLLIRLRIDGVLHLY
KTFPQNVSNRLISRIKLLAKLDISETRLPQDGQFHFKTILAETLDFRVSTLPTHFGEKVVLRIQKNKPINLDFLELGFTP
SQKEKLLNALNQPQGLILVTGPTGSGKSITLYSALSHLNSNEKHILTAEDPIEIEIEGIIQTQVNRGIHLDFSQLLRTFL
RQDPDIIMLGEIRDEESAEIALRAAQTGHLVLSTLHTNDSPSAIERLLQLGIKEYELKNTLLLVVAQRLLRRLCTTCGGI
GCTHCYQGYKGRIGIYQLLSRTAKNFEKTTACLDFETLAESAKEKLVEGKTDQNEILRVLGNGENL

Nucleotide


Download         Length: 1401 bp        

>NTDB_id=457507 HV560_RS06640 WP_176812459.1 1371693..1373093(+) (pilB) [Mannheimia pernigra strain 17CN0883]
ATGGCGTATTCAGTTACCGATCTTAACAGCCAGCAAATCATTGAAATTTCTGCCGAACAATGGGCAAAAAACGGCAATGA
AAAGCAGATTTTGTTGCGATATTTAGCCGTTCCGTTGCGAGAAACTGAATCACAATTATGGTTAGCGATTGATGATATGC
AAAACTTGAGTGCGTGTGAAATCTTTGCTTTTATTCATCATAAGCAGATTGAGCCTGTTTTGATTTCCTCTGATGAGTTG
AAATTTTTACTTAATGCCCTTTCACCCGAGCAGAGTCGCTTGCAGAGTGAAATTTATGAGGATAATGCCGCTTATTCGTT
ATCAAATGCAGAGCAGGTAGATAGAAACGATCCGATTATTCAAATTTTAGATAATCTCTTTAAATTTTGCTTAAAAAATA
ATGCCTCAGACATCCATTTGGAGCCTCAGAAAGAGAGGTTACTCATTCGACTAAGAATTGATGGAGTTTTACATCTTTAT
AAAACGTTTCCTCAAAATGTATCAAACCGACTGATTTCTCGAATTAAATTACTAGCGAAACTAGATATTAGTGAAACCCG
TTTGCCTCAAGATGGGCAATTTCATTTTAAAACGATTTTAGCAGAAACCTTAGATTTCCGCGTTTCAACTTTGCCTACGC
ATTTTGGTGAAAAAGTGGTACTTCGGATTCAAAAAAATAAGCCAATTAATTTGGACTTTTTAGAGTTAGGATTTACCCCA
AGCCAGAAAGAAAAATTGCTCAATGCACTGAATCAACCGCAAGGCTTGATTCTAGTAACAGGGCCGACAGGTAGTGGTAA
AAGTATCACGCTTTATAGTGCATTAAGTCATTTAAATAGCAATGAAAAACATATTTTAACCGCGGAAGATCCAATTGAAA
TTGAGATAGAGGGTATTATTCAAACTCAGGTAAATCGTGGTATTCATCTTGATTTTAGCCAACTACTGAGAACCTTCCTT
CGACAAGATCCTGACATCATTATGCTAGGTGAGATCCGTGATGAGGAGAGTGCAGAAATTGCCTTAAGAGCGGCACAAAC
TGGGCATTTGGTTCTTTCGACATTACATACTAATGATTCACCCTCTGCCATAGAGCGATTATTACAACTAGGCATTAAGG
AATATGAACTAAAAAATACATTATTACTCGTCGTTGCTCAACGTCTATTAAGGCGGCTTTGTACAACGTGCGGAGGAATT
GGATGTACGCATTGCTATCAAGGCTACAAAGGTAGAATTGGGATTTATCAACTCTTGAGCAGAACTGCAAAAAATTTTGA
AAAAACGACCGCTTGTTTAGATTTTGAAACCTTAGCTGAGAGTGCAAAAGAAAAATTAGTGGAAGGAAAAACAGATCAGA
ATGAAATTTTGAGGGTATTAGGAAATGGCGAAAATCTATGA

Domains

Predicted by InterproScan.

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

(29-92)

Type II/IV secretion system protein (T2SSE)

(131-392)


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

70.217

98.712

0.693
  pilB Haemophilus influenzae 86-028NP

56.828

97.425

0.554
  pilB Haemophilus influenzae Rd KW20

56.608

97.425

0.552
  pilB Vibrio campbellii strain DS40M4

41.079

100

0.425
  pilB Vibrio parahaemolyticus RIMD 2210633

40.541

100

0.418
  pilB Vibrio cholerae strain A1552

39.834

100

0.412
  pilB Legionella pneumophila strain ERS1305867

39.014

100

0.408
  pilB Acinetobacter baylyi ADP1

37.295

100

0.391
  pilB Acinetobacter baumannii D1279779

36.81

100

0.386
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.288

100

0.378
  ctsE Campylobacter jejuni subsp. jejuni 81-176

41.966

89.485

0.376