Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   D0856_RS00380 Genome accession   NZ_CP033144
Coordinates   67679..69364 (-) Length   561 a.a.
NCBI ID   WP_122067016.1    Uniprot ID   -
Organism   Vibrio owensii strain V180403     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 62679..74364
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D0856_RS00350 (D0856_00350) rplS 63105..63458 (+) 354 WP_005438036.1 50S ribosomal protein L19 -
  D0856_RS00355 (D0856_00355) yacG 63840..64040 (-) 201 WP_027726863.1 DNA gyrase inhibitor YacG -
  D0856_RS00360 (D0856_00360) zapD 64097..64837 (-) 741 WP_009707572.1 cell division protein ZapD -
  D0856_RS00365 (D0856_00365) coaE 64865..65479 (-) 615 WP_122067014.1 dephospho-CoA kinase -
  D0856_RS00370 (D0856_00370) pilD 65480..66349 (-) 870 WP_045413056.1 A24 family peptidase Machinery gene
  D0856_RS00375 (D0856_00375) pilC 66422..67645 (-) 1224 WP_122067015.1 type II secretion system F family protein Machinery gene
  D0856_RS00380 (D0856_00380) pilB 67679..69364 (-) 1686 WP_122067016.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D0856_RS00385 (D0856_00385) - 69364..69831 (-) 468 WP_122067017.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  D0856_RS00390 (D0856_00390) nadC 70096..70983 (-) 888 WP_122067018.1 carboxylating nicotinate-nucleotide diphosphorylase -
  D0856_RS00395 (D0856_00395) ampD 71076..71627 (+) 552 WP_038896786.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  D0856_RS00400 (D0856_00400) pdhR 72032..72799 (+) 768 WP_005438026.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62275.22 Da        Isoelectric Point: 5.6667

>NTDB_id=321819 D0856_RS00380 WP_122067016.1 67679..69364(-) (pilB) [Vibrio owensii strain V180403]
MHTNLSTVLRQAGILTFSQEELLLEQAKASGISMPEALLNSGFFQSYELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRALGQEKSRLKEINQDELAS
LVEIGDDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRQPQEPNAQLQHIGIISTEH
VFKANPDGCNECTHGYSGRTGIYEVMKFDESLSEALIKGASVHELEKLAIAKGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=321819 D0856_RS00380 WP_122067016.1 67679..69364(-) (pilB) [Vibrio owensii strain V180403]
ATGCACACAAACCTATCAACAGTTCTTCGCCAAGCTGGAATACTGACTTTTTCCCAAGAAGAACTGTTACTTGAGCAAGC
TAAAGCTTCTGGTATCTCAATGCCGGAGGCTTTGCTCAATTCTGGCTTTTTCCAATCTTATGAGTTAACGGAGCACCTAA
GCTCTGTTTTTGGGCTTTCGTGCACTTCTCTCAATCAATACGAATACGCTTCGTTATGCCAAACGCTAGGTTTGCGAGAT
TTGATCACTCGGCACAACGCTCTGCCGCTTAATCGCACCTCTTCAACTTTGATTCTCGCGGTTGCCGACCCAACCAACCT
TCAAGCCGAAGACGACTTTCGTTTTGCTACCGGCTTACAAGTAGAGCTAGTTCTGGCGGATTTTCGAGAGCTGACAGCTG
CCATTCGGCGCTTATATGGCCGAGCACTTGGGCAGGAAAAGTCGAGGTTAAAAGAGATAAACCAAGATGAGCTCGCAAGC
TTGGTTGAGATTGGGGATGATGAGATTGAGAACATCGAAGATCTCAGTCAAGACGAATCCCCCGTCAGTCGTTATATCAA
CCAAATCTTACTCGATGCGGTTCGTAAAGGCGCTTCCGATATTCACTTCGAACCCTACGAAAACATGTATCGAGTCCGTT
TACGCTGCGATGGCATCTTGATTGAAATTCAACAGCCACCTAGCCATTTAAGTCGCCGTCTCTCTGCCCGAATAAAGATC
CTATCTAAGCTCGATATTGCTGAACGTCGTTTGCCGCAAGATGGGCGCATCAAACTCAAATTAAACCAAGACACCGCGAT
CGATATGCGTGTCTCCACACTGCCAACTCTATTTGGAGAAAAGATCGTACTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTTGGTTATAGCGACCAACAGAAACAGCTTTATTTGGATGCTCTGCGTCGGCCACAAGGCATGATT
TTGATGACGGGTCCAACTGGCAGCGGCAAAACCGTTTCTCTTTACACAGGTCTAAGCATTCTCAACAAACCAGAGATCAA
CATCTCAACTGCGGAAGACCCAGTGGAGATTAACTTACCCGGCATTAACCAAGTTCAAGTTCAGCCTAAGATCGGTTTTG
GTTTTGCCGAAGCACTTCGTTCTTTCTTGCGTCAGGATCCTGATGTTGTCATGGTGGGTGAGATCCGGGACCTCGATACC
GCAGAAATCGCGATCAAAGCATCGCAAACTGGTCACTTGGTTCTTTCCACGTTACATACCAACTCCGCCGCTGAAACTGT
AATCCGATTATCCAACATGGGTGTGGAAAGCTTTAACCTCGCTTCTTCACTCAGTTTGATTATCGCCCAGCGGTTAGCAC
GCAAACTGTGCCCACACTGCAGACAGCCGCAAGAACCAAATGCCCAACTGCAGCATATTGGGATTATAAGTACAGAGCAT
GTCTTTAAAGCCAATCCAGATGGTTGTAACGAGTGTACTCACGGTTATTCAGGTCGAACGGGCATCTATGAAGTGATGAA
GTTTGATGAATCCCTATCTGAGGCGCTCATAAAAGGAGCTTCAGTACACGAATTAGAAAAACTCGCTATCGCCAAAGGGA
TGCAAACCCTACAAATGTCTGGCATAGAAAAACTCAAACAAGGCGTCACTAGCTTCAGTGAATTACAACGCGTTCTCTAC
TTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-142)


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

96.078

100

0.961
  pilB Vibrio parahaemolyticus RIMD 2210633

89.483

100

0.895
  pilB Vibrio cholerae strain A1552

73.488

100

0.736
  pilB Acinetobacter baumannii D1279779

51.252

92.513

0.474
  pilB Legionella pneumophila strain ERS1305867

48.524

96.613

0.469
  pilB Acinetobacter baylyi ADP1

48.339

96.613

0.467
  pilF Neisseria gonorrhoeae MS11

42.908

100

0.431
  pilB/pilB1 Synechocystis sp. PCC 6803

37.205

100

0.394
  pilF Thermus thermophilus HB27

36.702

100

0.369
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.559

99.465

0.364

Multiple sequence alignment