Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACHZDB_RS08630 Genome accession   NZ_CP172405
Coordinates   1906015..1907739 (-) Length   574 a.a.
NCBI ID   WP_399423768.1    Uniprot ID   -
Organism   Vibrio campbellii strain LB503     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1901015..1912739
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACHZDB_RS08595 (ACHZDB_08595) - 1901321..1902076 (-) 756 WP_399423758.1 PilW family protein -
  ACHZDB_RS08600 (ACHZDB_08600) - 1902076..1902645 (-) 570 WP_399423760.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  ACHZDB_RS08605 (ACHZDB_08605) - 1902642..1903127 (-) 486 WP_399423762.1 type II secretion system protein -
  ACHZDB_RS08610 (ACHZDB_08610) - 1903247..1903477 (-) 231 WP_005432800.1 type II secretion system protein -
  ACHZDB_RS08615 (ACHZDB_08615) - 1903546..1904013 (-) 468 WP_047482422.1 type II secretion system protein -
  ACHZDB_RS08620 (ACHZDB_08620) - 1904317..1904778 (-) 462 WP_399423764.1 MSHA biogenesis protein MshF -
  ACHZDB_RS08625 (ACHZDB_08625) - 1904783..1906006 (-) 1224 WP_399423766.1 type II secretion system F family protein -
  ACHZDB_RS08630 (ACHZDB_08630) pilB 1906015..1907739 (-) 1725 WP_399423768.1 GspE/PulE family protein Machinery gene
  ACHZDB_RS08635 (ACHZDB_08635) - 1907736..1908833 (-) 1098 WP_182053523.1 lipopolysaccharide assembly protein LapB -
  ACHZDB_RS08640 (ACHZDB_08640) - 1908818..1909663 (-) 846 WP_399423771.1 ExeA family protein -
  ACHZDB_RS08645 (ACHZDB_08645) mshL 1909706..1911340 (-) 1635 WP_045382715.1 pilus (MSHA type) biogenesis protein MshL -
  ACHZDB_RS08650 (ACHZDB_08650) - 1911361..1911690 (-) 330 WP_005533781.1 hypothetical protein -
  ACHZDB_RS08655 (ACHZDB_08655) gspM 1911683..1912333 (-) 651 WP_038891137.1 type II secretion system protein GspM -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 63790.06 Da        Isoelectric Point: 4.9676

>NTDB_id=953430 ACHZDB_RS08630 WP_399423768.1 1906015..1907739(-) (pilB) [Vibrio campbellii strain LB503]
MKIQLRKRLGDLLVEEGIVSEDQVQQALSAQHSTGQKLGDALIDLGFISEKQMLEFLSQQLGLPLIDLSRAPVDADAVQI
LPEVHARRLRAMVVARNGDTLRVAMSDPADLFTQESLMNLLGEYDLEFIIAPERQLVESFDRYYRRTKEIASFAEQLQAE
HQDVEGFDYGIDEGDSEEVTVVKLVNSMFEDAVQVGASDIHIEPDDKVLRLRQRVDGVLHETLLNEVNIASALVLRLKLM
AHLDISEKRLPQDGRFNIKVRGQSIDIRMSTLPTQYGESVVMRLLNQSSGLRKLEDSGLPPELLARLRRQLARPHGMILV
TGPTGSGKTTTLYGALSELNEPGKKIITAEDPVEYRLPRITQVQINSKIDLTFSRVLRTFLRQDPDIILIGEMRDQETVE
IGLRAALTGHLVLSTLHTNDAVDSALRMIDMGAPGYLVASAVRAVVAQRLVRRVCPDCKTTDVLDESRQQWLAGRFPNQI
GTTFHKGAGCQNCNLTGYRGRVGVFEILELENEMMDKLRANDAVGFAQVARRSENYKPLLASAMELALQGTVSLDEVMAL
GEGDASGKTDPIFM

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=953430 ACHZDB_RS08630 WP_399423768.1 1906015..1907739(-) (pilB) [Vibrio campbellii strain LB503]
ATGAAAATTCAGTTGAGAAAACGCTTAGGCGACCTATTGGTTGAAGAGGGTATTGTCTCTGAAGATCAGGTCCAGCAAGC
CCTGAGTGCTCAGCATAGCACCGGACAAAAGTTGGGTGACGCTCTTATCGATCTTGGCTTTATCAGTGAAAAGCAGATGC
TGGAGTTTTTGTCTCAGCAACTTGGTTTGCCTCTGATTGATTTAAGCCGTGCACCTGTTGATGCCGATGCGGTGCAGATT
CTTCCTGAAGTACACGCGCGCCGTTTACGTGCAATGGTTGTGGCTCGTAATGGTGACACGCTGCGTGTTGCCATGAGTGA
CCCTGCTGATCTATTTACCCAAGAGTCATTGATGAACTTGTTAGGTGAGTACGACTTAGAGTTCATCATTGCACCTGAAC
GCCAGTTAGTAGAAAGCTTTGACCGCTATTATCGCCGAACCAAAGAAATCGCGTCGTTTGCTGAACAGCTGCAAGCTGAG
CACCAAGATGTTGAAGGCTTTGATTACGGCATTGATGAAGGCGATAGCGAAGAAGTTACCGTTGTAAAACTGGTTAACTC
GATGTTTGAAGATGCTGTTCAAGTTGGCGCATCAGATATTCATATTGAGCCAGACGACAAGGTGCTGCGTTTACGTCAGC
GTGTCGATGGTGTATTGCATGAAACCCTTCTAAACGAAGTGAATATTGCTTCTGCATTGGTACTACGCCTGAAATTAATG
GCGCATCTCGATATCTCTGAAAAGCGCTTACCTCAAGATGGTCGATTCAATATCAAAGTTCGTGGTCAATCGATCGATAT
TCGTATGTCTACTCTGCCAACGCAATACGGTGAATCAGTAGTAATGCGTTTGCTAAACCAATCTTCTGGTTTGCGTAAGC
TTGAGGATTCTGGCTTACCACCTGAGTTGTTAGCACGTCTTCGTCGTCAACTTGCTCGCCCTCACGGCATGATCCTAGTT
ACGGGGCCGACAGGTTCAGGTAAAACCACCACGCTTTATGGTGCGTTGAGTGAATTAAACGAGCCGGGCAAAAAGATCAT
CACCGCAGAAGATCCAGTGGAATATCGTTTACCACGTATTACTCAGGTTCAGATCAACAGTAAGATCGATCTAACGTTTT
CTCGCGTGCTACGTACCTTCCTACGTCAAGACCCAGACATCATCCTTATCGGTGAGATGCGTGACCAAGAAACGGTTGAG
ATTGGCCTCCGTGCTGCACTAACTGGTCACTTAGTATTGAGTACCTTGCACACCAACGATGCGGTAGATAGTGCGCTGCG
AATGATTGATATGGGTGCTCCGGGTTATTTGGTCGCGAGTGCTGTTCGTGCGGTTGTGGCTCAACGTCTTGTTCGTCGTG
TCTGCCCTGACTGTAAAACGACGGATGTGCTCGATGAGTCTCGTCAGCAGTGGCTTGCGGGGCGCTTCCCAAATCAAATC
GGCACTACTTTCCACAAAGGTGCAGGTTGTCAAAACTGTAACCTGACCGGTTATCGTGGCCGAGTTGGTGTGTTTGAAAT
ACTCGAGCTAGAAAATGAGATGATGGACAAGCTGCGTGCTAATGATGCTGTAGGCTTTGCTCAAGTGGCGCGCCGCTCAG
AAAACTATAAGCCTCTGTTGGCTTCTGCTATGGAGCTTGCACTGCAAGGTACCGTGAGTTTGGATGAAGTCATGGCTCTA
GGTGAGGGCGATGCTTCTGGTAAAACCGACCCAATTTTCATGTAG

Domains

Predicted by InterProScan.

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

(42-148)

Type II/IV secretion system protein (T2SSE)

(187-453)


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 Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.681

97.735

0.378
  pilB/pilB1 Synechocystis sp. PCC 6803

35.42

100

0.375
  pilB Acinetobacter baumannii D1279779

36.907

99.129

0.366
  pilF Thermus thermophilus HB27

37.5

97.561

0.366
  pilB Legionella pneumophila strain ERS1305867

36.926

98.606

0.364