Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACMCNI_RS08445 Genome accession   NZ_AP038791
Coordinates   1819806..1821185 (-) Length   459 a.a.
NCBI ID   WP_226691634.1    Uniprot ID   -
Organism   Rodentibacter sp. THUN1657     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1814806..1826185
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACMCNI_RS08415 (THUN1657_16160) - 1815190..1816506 (+) 1317 WP_412763598.1 NCS2 family permease -
  ACMCNI_RS08420 (THUN1657_16170) - 1816789..1817070 (-) 282 WP_412763599.1 GNAT family N-acetyltransferase -
  ACMCNI_RS08425 (THUN1657_16180) yacG 1817067..1817273 (-) 207 WP_226691637.1 DNA gyrase inhibitor YacG -
  ACMCNI_RS08430 (THUN1657_16190) coaE 1817266..1817886 (-) 621 WP_226692923.1 dephospho-CoA kinase -
  ACMCNI_RS08435 (THUN1657_16200) pilD 1817886..1818587 (-) 702 WP_226691636.1 prepilin peptidase Machinery gene
  ACMCNI_RS08440 (THUN1657_16210) pilC 1818584..1819804 (-) 1221 WP_226691635.1 type II secretion system F family protein Machinery gene
  ACMCNI_RS08445 (THUN1657_16220) pilB 1819806..1821185 (-) 1380 WP_226691634.1 GspE/PulE family protein Machinery gene
  ACMCNI_RS08450 (THUN1657_16230) pilA 1821182..1821619 (-) 438 WP_226691633.1 prepilin peptidase-dependent pilin Machinery gene
  ACMCNI_RS08455 (THUN1657_16240) ampD 1821735..1822298 (+) 564 WP_226691632.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACMCNI_RS08460 (THUN1657_16250) rppH 1822815..1823399 (+) 585 WP_226691631.1 RNA pyrophosphohydrolase -
  ACMCNI_RS08465 (THUN1657_16260) lgt 1823531..1824331 (+) 801 WP_374707287.1 prolipoprotein diacylglyceryl transferase -
  ACMCNI_RS08470 (THUN1657_16270) - 1824455..1825306 (+) 852 WP_226691630.1 thymidylate synthase -
  ACMCNI_RS08475 (THUN1657_16280) tadA 1825318..1825824 (+) 507 WP_255618266.1 tRNA adenosine(34) deaminase TadA -

Sequence

Protein


Download         Length: 459 a.a.        Molecular weight: 52336.65 Da        Isoelectric Point: 5.6179

>NTDB_id=111256 ACMCNI_RS08445 WP_226691634.1 1819806..1821185(-) (pilB) [Rodentibacter sp. THUN1657]
MIDCATYQATAQNGEIFMISPELWERNQQQQSLFLRYFALPLKEEKNRLWLAVDSFSNLSACETIAFISGKLVEPVLLDS
PQLKALLQQLAPQAMQVEEQVSFYHQEQEQEKNDDEPVIQLLNQIFESAMQKNVSDIHLETLQHYFQVRFRIDGVLQPQP
PISKNLANRLISRLKLLAKLDISETRLPQDGRFQFKTTFSDVLDFRLSTLPTHWGEKIVLRAQQNKPVELSFAELGMTEF
QQRTFQHALSQPQGLILVTGPTGSGKSISLYTALQWLNSPDKHIMTAEDPIEIELDGIIQSQINPQIGLDFSRLLRAFLR
QDPDIIMLGEIRDEESASMALRAAQTGHLVLSTLHTNDAISAISRLQQLGIKQHEIESSLLLIIAQRLLRKRCQKCGQFN
ESSCDCHQGYRGRIGVYQFLHWQQNGYQTDFADLRQSGLEKVKQGISDEAELHRVLGGE

Nucleotide


Download         Length: 1380 bp        

>NTDB_id=111256 ACMCNI_RS08445 WP_226691634.1 1819806..1821185(-) (pilB) [Rodentibacter sp. THUN1657]
ATGATAGATTGCGCGACATATCAAGCCACAGCACAAAACGGCGAGATCTTTATGATCTCGCCGGAATTATGGGAACGCAA
TCAGCAGCAGCAATCTCTTTTCTTGCGTTACTTCGCCCTCCCTCTAAAAGAAGAAAAAAATCGTTTATGGCTTGCCGTTG
ATTCCTTTTCTAACCTTTCCGCTTGTGAAACCATTGCTTTTATCAGTGGAAAATTGGTTGAACCCGTCTTATTAGACAGC
CCGCAACTCAAAGCCCTTTTGCAGCAGCTTGCACCGCAAGCAATGCAAGTAGAAGAACAAGTCAGTTTTTATCATCAAGA
ACAGGAACAAGAAAAAAATGATGATGAACCTGTTATTCAACTCCTGAACCAAATTTTTGAATCGGCAATGCAAAAAAATG
TCTCCGACATTCATTTAGAAACATTACAACATTATTTTCAAGTACGATTTAGAATTGATGGCGTTTTACAACCCCAGCCC
CCAATTAGTAAAAACTTGGCGAATCGGCTCATTTCACGTTTAAAACTTCTTGCCAAACTCGACATTAGTGAAACACGTTT
ACCACAAGACGGACGTTTTCAATTTAAGACAACCTTTTCCGATGTACTTGATTTTCGTCTCTCCACATTACCTACTCATT
GGGGAGAAAAAATCGTACTTCGTGCGCAACAAAATAAACCGGTGGAACTGAGTTTTGCCGAATTGGGAATGACGGAATTT
CAACAACGCACCTTTCAACACGCCCTAAGCCAGCCACAGGGGTTGATTTTGGTAACCGGCCCAACGGGGAGTGGAAAAAG
TATTTCGCTTTATACCGCACTTCAATGGTTAAATTCTCCCGATAAACATATTATGACCGCAGAAGATCCCATTGAAATTG
AACTGGACGGCATTATTCAAAGCCAAATCAACCCGCAAATCGGGCTGGATTTTAGTCGTTTATTACGTGCTTTTTTACGA
CAAGATCCCGACATTATTATGCTCGGTGAAATTCGCGATGAAGAAAGTGCAAGTATGGCATTACGCGCCGCACAAACCGG
ACATTTAGTGCTTTCGACATTGCATACCAACGATGCGATTTCCGCCATTTCACGGCTTCAACAACTAGGCATTAAACAGC
ACGAAATCGAAAGCAGTTTACTTTTAATCATTGCTCAACGCTTGTTACGTAAACGCTGTCAAAAGTGCGGTCAATTTAAC
GAAAGTTCTTGCGATTGCCATCAAGGTTATCGAGGGCGCATTGGCGTTTATCAATTCTTACATTGGCAGCAAAACGGCTA
TCAAACAGACTTTGCCGATCTTCGCCAAAGCGGATTAGAAAAAGTGAAACAGGGGATCTCTGATGAAGCGGAACTTCATC
GTGTTTTAGGTGGAGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(124-391)

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

(21-94)


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

85.872

98.693

0.847
  pilB Haemophilus influenzae Rd KW20

84.106

98.693

0.83
  pilB Glaesserella parasuis strain SC1401

57.987

99.564

0.577
  pilB Vibrio cholerae strain A1552

41.856

100

0.442
  pilB Vibrio campbellii strain DS40M4

41.684

100

0.442
  pilB Vibrio parahaemolyticus RIMD 2210633

41.372

100

0.434
  pilB Legionella pneumophila strain ERS1305867

39.511

100

0.423
  pilB Acinetobacter baumannii D1279779

39.468

100

0.42
  pilB Acinetobacter baylyi ADP1

37.4

100

0.407
  pilF Neisseria gonorrhoeae MS11

37.395

100

0.388
  pilF Thermus thermophilus HB27

35.532

100

0.364
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.069

100

0.364

Multiple sequence alignment