Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KHO06_RS03855 Genome accession   NZ_HG992751
Coordinates   826237..827922 (-) Length   561 a.a.
NCBI ID   WP_038891992.1    Uniprot ID   -
Organism   Vibrio sp. B1FIG11 isolate LMG10946-nano     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 821237..832922
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KHO06_RS03820 (ACOMICROBIO_LMKGKHOH_01399) - 821519..821659 (-) 141 WP_010650907.1 DUF3149 domain-containing protein -
  KHO06_RS03830 (ACOMICROBIO_LMKGKHOH_01401) yacG 822397..822597 (-) 201 WP_012128882.1 DNA gyrase inhibitor YacG -
  KHO06_RS03835 (ACOMICROBIO_LOCUS577) zapD 822654..823394 (-) 741 WP_012128881.1 cell division protein ZapD -
  KHO06_RS03840 (ACOMICROBIO_LOCUS578) coaE 823422..824036 (-) 615 WP_045451194.1 dephospho-CoA kinase -
  KHO06_RS03845 (ACOMICROBIO_LOCUS579) pilD 824037..824906 (-) 870 WP_012128879.1 A24 family peptidase Machinery gene
  KHO06_RS03850 (ACOMICROBIO_LOCUS580) pilC 824979..826202 (-) 1224 WP_012128878.1 type II secretion system F family protein Machinery gene
  KHO06_RS03855 (ACOMICROBIO_LOCUS581) pilB 826237..827922 (-) 1686 WP_038891992.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KHO06_RS03860 (ACOMICROBIO_LOCUS582) - 827930..828355 (-) 426 WP_212582119.1 pilin -
  KHO06_RS03865 (ACOMICROBIO_LOCUS583) nadC 828621..829508 (-) 888 WP_212582120.1 carboxylating nicotinate-nucleotide diphosphorylase -
  KHO06_RS03870 (ACOMICROBIO_LOCUS584) ampD 829601..830152 (+) 552 WP_038891990.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  KHO06_RS03875 (ACOMICROBIO_LOCUS585) pdhR 830557..831324 (+) 768 WP_005428674.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62080.85 Da        Isoelectric Point: 5.1024

>NTDB_id=1112472 KHO06_RS03855 WP_038891992.1 826237..827922(-) (pilB) [Vibrio sp. B1FIG11 isolate LMG10946-nano]
MLTNLSTVLRQAGILTFSQEESLLEQVKASGISMPEALLSSGFFQSHELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRSLGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDSQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCRQPQEPNSQLQHIGITSTEQ
IFQANPDGCNECTHGYSGRTGIYEVMKFDESLSEALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1112472 KHO06_RS03855 WP_038891992.1 826237..827922(-) (pilB) [Vibrio sp. B1FIG11 isolate LMG10946-nano]
GTGCTAACCAACCTTTCAACGGTTCTTCGCCAAGCAGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGT
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCTCACGAATTGACAGAACACCTAA
GCTCAGTATTCGGGCTTTCTTGCACTTCTCTTAACCAATACGAATACGCTTCGCTATGTCAAACGCTCGGCTTACGCGAT
CTCATCACTCGCCATAACGCTTTGCCGCTTAACCGCACCTCTTCAACTTTGATTCTTGCTGTTGCCGACCCAACAAACCT
TCAAGCCGAAGATGACTTTCGTTTTGCGACAGGTTTGCAAGTCGAACTTGTCCTCGCTGACTTTCGTGAGCTAACAGCAG
CCATTCGACGTTTATATGGCCGATCGCTTGGGCAAGAAAAATCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCGGGT
TTGGTTGATATTGGTGAGGATGAAATTGAAAACATCGAAGATCTCAGCCAAGATGAATCGCCGGTCAGTCGCTATATCAA
CCAAATTTTACTCGATGCTGTCCGTAAAGGGGCTTCCGATATTCACTTCGAGCCTTACGAAAATATGTATCGCGTGCGCT
TGCGTTGCGATGGCATCTTAATTGAAATTCAGCAGCCTCCGAGTCATTTAAGCCGTCGCCTTTCAGCTCGGATAAAAATC
TTATCTAAGCTTGATATCGCCGAGCGCCGTTTACCACAGGATGGACGCATCAAGCTCAAATTAAACCAAGACACTGCAAT
TGATATGCGTGTCTCCACACTACCAACTCTTTTTGGGGAAAAGATTGTTCTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAGCTAGGTTATAGCGACTCACAGAAACAACTTTATTTGGATGCCCTGCGCCGTCCGCAAGGTATGATC
CTGATGACAGGCCCAACAGGTAGCGGTAAAACGGTCTCGCTCTACACTGGATTGAGCATTCTTAATAAACCAGAGATCAA
TATCTCAACCGCTGAAGATCCCGTTGAGATTAACCTGCCCGGCATTAACCAAGTTCAAGTTCAGCCAAAGATCGGCTTTG
GTTTTGCAGAGGCGCTTCGCTCTTTCTTACGTCAAGACCCTGATGTAGTCATGGTGGGCGAGATCCGAGATCTCGACACA
GCAGAAATCGCGATCAAAGCATCACAGACTGGCCACTTAGTTCTCTCCACTTTACACACAAACTCAGCTGCCGAGACTGT
CATTCGCTTGTCTAATATGGGCGTAGAAAGCTTTAACCTCGCCTCTTCTCTCAGTTTGATCATCGCCCAGCGTTTGGCTA
GAAAACTTTGTCCATATTGTAGACAACCTCAAGAGCCAAACAGCCAACTTCAACATATTGGAATCACCAGCACCGAACAG
ATCTTTCAAGCTAATCCCGACGGTTGTAACGAGTGTACCCATGGTTATTCAGGGCGAACCGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTTTCAGAAGCACTCATCAAAGGCGCCTCGGTACACGAATTAGAAAAACTCGCCATTGCCAATGGTA
TGCAAACCTTACAAATGTCTGGCATCGAAAAACTCAAACAAGGCATTACCAGCTTCAGCGAATTGCAGCGCGTTCTCTAC
TTTTAA

Domains

Predicted by InterproScan.

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

(38-142)

Type II/IV secretion system protein (T2SSE)

(188-455)


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 Vibrio campbellii strain DS40M4

99.287

100

0.993
  pilB Vibrio parahaemolyticus RIMD 2210633

90.731

100

0.907
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Legionella pneumophila strain ERS1305867

47.756

99.287

0.474
  pilB Acinetobacter baumannii D1279779

51.252

92.513

0.474
  pilB Acinetobacter baylyi ADP1

50.29

92.157

0.463
  pilF Neisseria gonorrhoeae MS11

43.617

100

0.439
  pilB/pilB1 Synechocystis sp. PCC 6803

37.205

100

0.394
  pilF Thermus thermophilus HB27

36.833

100

0.369
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.559

99.465

0.364

Multiple sequence alignment