Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACHZDB_RS07620 Genome accession   NZ_CP172405
Coordinates   1719403..1721088 (+) Length   561 a.a.
NCBI ID   WP_399425125.1    Uniprot ID   -
Organism   Vibrio campbellii strain LB503     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1714403..1726088
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACHZDB_RS07600 (ACHZDB_07600) pdhR 1715985..1716752 (-) 768 WP_005428674.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  ACHZDB_RS07605 (ACHZDB_07605) ampD 1717157..1717708 (-) 552 WP_050912909.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACHZDB_RS07610 (ACHZDB_07610) nadC 1717801..1718688 (+) 888 WP_399425123.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACHZDB_RS07615 (ACHZDB_07615) pilA 1718954..1719403 (+) 450 WP_399425124.1 pilin Machinery gene
  ACHZDB_RS07620 (ACHZDB_07620) pilB 1719403..1721088 (+) 1686 WP_399425125.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACHZDB_RS07625 (ACHZDB_07625) pilC 1721123..1722346 (+) 1224 WP_079400987.1 type II secretion system F family protein Machinery gene
  ACHZDB_RS07630 (ACHZDB_07630) pilD 1722419..1723288 (+) 870 WP_012128879.1 A24 family peptidase Machinery gene
  ACHZDB_RS07635 (ACHZDB_07635) coaE 1723289..1723903 (+) 615 WP_399425126.1 dephospho-CoA kinase -
  ACHZDB_RS07640 (ACHZDB_07640) zapD 1723931..1724671 (+) 741 WP_012128881.1 cell division protein ZapD -
  ACHZDB_RS07645 (ACHZDB_07645) yacG 1724734..1724928 (+) 195 WP_005534053.1 DNA gyrase inhibitor YacG -
  ACHZDB_RS07650 (ACHZDB_07650) rplS 1725416..1725769 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62109.85 Da        Isoelectric Point: 5.1024

>NTDB_id=1067432 ACHZDB_RS07620 WP_399425125.1 1719403..1721088(+) (pilB) [Vibrio campbellii strain LB503]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRSLGQEKSGLKEINQDELAG
LVDISEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDSQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCRQPQEPNSQLQHIGITSTEQ
IFQANPDGCNECTHGYSGRTGIYEVMKFDESLSEALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1067432 ACHZDB_RS07620 WP_399425125.1 1719403..1721088(+) (pilB) [Vibrio campbellii strain LB503]
GTGCTAACCAACCTCTCAACGGTTCTTCGCCAAGCTGGAATACTGACCTTCTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCTCATGAATTAACGGAGCACCTAA
GCTCAGTATTCGGGCTTTCTTGCACTTCTCTTAACCAATACGAATACGCTTCGCTATGCCAAACGCTTGGCTTACGCGAT
CTCATCACTCGCCATAACGCTTTGCCGCTTAACCGCACCTCTTCAACTTTAATTCTCGCGGTAGCTGACCCAACCAACCT
TCAAGCCGAAGATGACTTTCGTTTTGCAACCGGCTTGCAAGTCGAGCTTGTCCTCGCTGACTTTCGTGAGCTAACAGCAG
CCATTCGACGTTTATATGGCCGATCACTTGGGCAAGAGAAATCCGGTCTTAAAGAAATCAACCAAGATGAACTAGCGGGT
TTAGTTGATATTAGTGAGGATGAAATTGAGAACATCGAAGATCTCAGCCAAGATGAATCGCCGGTCAGTCGCTATATCAA
CCAGATTCTACTCGATGCTGTCCGTAAAGGGGCTTCCGATATTCACTTCGAGCCTTACGAAAACATGTACCGCGTGCGCT
TGCGTTGCGATGGCATCTTAATTGAAATTCAGCAGCCTCCGAGTCATTTAAGCCGTCGCCTTTCAGCTCGGATAAAAATC
CTATCTAAGCTCGATATTGCTGAACGTCGCTTACCTCAGGATGGACGAATCAAACTTAAGCTAAACCAAGACACCGCGAT
TGATATGCGCGTTTCTACATTGCCAACCCTATTTGGTGAGAAGATTGTTCTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAGCTAGGTTATAGCGACTCACAGAAACAACTTTATTTGGATGCCCTGCGCCGTCCGCAAGGTATGATC
CTGATGACAGGCCCAACAGGTAGCGGTAAAACGGTCTCGCTCTATACTGGATTGAACATTCTTAATAAACCAGAGATCAA
TATCTCAACCGCTGAAGATCCCGTAGAGATTAACCTGCCCGGCATTAACCAAGTTCAAGTTCAGCCAAAGATCGGCTTTG
GTTTTGCAGAGGCGCTTCGCTCTTTCTTACGTCAAGACCCTGATGTCGTCATGGTGGGCGAGATCCGAGATCTCGACACA
GCAGAAATCGCGATCAAAGCATCACAGACTGGCCACTTAGTTCTCTCCACTTTGCACACAAACTCAGCTGCCGAGACTGT
TATTCGCTTGTCTAATATGGGCGTAGAAAGCTTTAACCTCGCCTCTTCTCTCAGTTTGATCATCGCCCAGCGTTTGGCTA
GAAAACTTTGTCCATATTGTAGACAACCTCAAGAGCCAAACAGCCAACTTCAACATATTGGAATCACCAGCACCGAACAG
ATCTTTCAAGCTAATCCCGACGGTTGTAACGAGTGTACCCATGGTTATTCAGGGCGAACCGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTTTCAGAAGCACTCATCAAAGGCGCCTCGGTACACGAATTAGAAAAACTCGCCATTGCCAATGGTA
TGCAAACCTTACAAATGTCTGGCATCGAAAAACTCAAACAAGGCATTACCAGCTTCAGCGAATTACAGCGCGTTCTCTAC
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

98.752

100

0.988
  pilB Vibrio parahaemolyticus RIMD 2210633

90.553

100

0.906
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Acinetobacter baylyi ADP1

48.115

99.287

0.478
  pilB Acinetobacter baumannii D1279779

51.056

92.87

0.474
  pilB Legionella pneumophila strain ERS1305867

48.708

96.613

0.471
  pilF Neisseria gonorrhoeae MS11

43.794

100

0.44
  pilB/pilB1 Synechocystis sp. PCC 6803

36.532

100

0.387
  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