Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABIS04_RS18180 Genome accession   NZ_CP157213
Coordinates   4187052..4188758 (+) Length   568 a.a.
NCBI ID   WP_350432000.1    Uniprot ID   -
Organism   Shewanella sp. H8     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4182052..4193758
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABIS04_RS18160 (ABIS04_18145) ampE 4182960..4183811 (-) 852 WP_350431996.1 beta-lactamase regulator AmpE -
  ABIS04_RS18165 (ABIS04_18150) ampD 4183970..4184524 (-) 555 WP_350431997.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ABIS04_RS18170 (ABIS04_18155) nadC 4184733..4185611 (+) 879 WP_350431998.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ABIS04_RS18175 (ABIS04_18160) - 4186523..4186966 (+) 444 WP_350431999.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  ABIS04_RS18180 (ABIS04_18165) pilB 4187052..4188758 (+) 1707 WP_350432000.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABIS04_RS18185 (ABIS04_18170) pilC 4188953..4190218 (+) 1266 WP_350432001.1 type II secretion system F family protein Machinery gene
  ABIS04_RS18190 (ABIS04_18175) pilD 4190253..4191167 (+) 915 WP_350432002.1 A24 family peptidase Machinery gene
  ABIS04_RS18195 (ABIS04_18180) coaE 4191164..4191793 (+) 630 WP_350432003.1 dephospho-CoA kinase -
  ABIS04_RS18200 (ABIS04_18185) zapD 4191786..4192520 (+) 735 WP_140235345.1 cell division protein ZapD -
  ABIS04_RS18205 (ABIS04_18190) yacG 4192563..4192775 (+) 213 WP_350432004.1 DNA gyrase inhibitor YacG -
  ABIS04_RS18210 (ABIS04_18195) mutT 4192786..4193184 (+) 399 WP_350432005.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62868.25 Da        Isoelectric Point: 5.5792

>NTDB_id=1004704 ABIS04_RS18180 WP_350432000.1 4187052..4188758(+) (pilB) [Shewanella sp. H8]
MSNTGLHLGLSTLFIRKNLLSEEQISTSITLSRKTKQSLVTTLIHSKFLSAREIAELCYEEYGTPLLDLNEFDIANITEG
LLNKKLINKHKCLPLFKRGNRLYIATSDPTNIAALEDFQFSLGLHAEAILVEDDKLLKALEKILEEDISGLGLEGIDEEA
LAGIEVTDTSRDDEPSGDSSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLSNRISAR
LKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSSLPTIWGEKIVMRILDSSSAQLGIEKLGYEDDQRLLYEEMLAKPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKHEEEVPVAELQRLGFT
EADINKGITVFKPVGCELCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIATLAKQQGMRDLRQSGLLKVIHGVTSIA
EINRVTSF

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=1004704 ABIS04_RS18180 WP_350432000.1 4187052..4188758(+) (pilB) [Shewanella sp. H8]
ATGTCCAACACTGGCTTACATTTAGGTTTATCAACATTATTTATTCGAAAAAACCTTCTTTCTGAAGAACAAATTTCAAC
GTCTATAACACTCTCCCGTAAAACCAAACAGTCCCTAGTCACAACGTTAATTCATTCCAAATTTCTCTCAGCTCGTGAAA
TTGCCGAGCTTTGTTATGAAGAATATGGTACTCCGTTACTTGATCTTAATGAATTTGATATAGCTAATATAACTGAAGGT
TTATTAAACAAAAAACTCATAAATAAACATAAATGCTTACCACTTTTTAAACGTGGTAATCGACTTTATATCGCCACTTC
AGACCCAACCAATATTGCGGCACTTGAAGATTTCCAATTTAGTTTAGGCCTACATGCAGAAGCTATTTTAGTCGAAGACG
ATAAACTCCTTAAAGCCTTAGAAAAAATACTCGAAGAAGACATTAGCGGTTTGGGTTTAGAAGGCATTGACGAAGAAGCC
TTGGCTGGAATTGAAGTAACTGATACCAGTAGGGATGATGAACCGAGCGGTGACAGCAGCGATGATGCCCCGATTGTTAT
CTATATCAATAAAATCCTTACCGATGCAATTCGTAAAGGTGCCTCTGATTTACATTTCGAACCTTACGAGAAACGTTATC
GAATTCGTTTCCGTATTGATGGCATATTACATGAAGTCTCCGAGCCACCAGTTAACTTATCCAACCGAATTTCTGCCCGG
TTAAAAGTGATGTCGAAACTTGATATTGCCGAGCGTCGGGTACCGCAAGATGGCCGGATTAAAATGAAGCTGTCACGCAC
CAAATCCATCGATTTTCGTGTCAGTAGCTTGCCCACTATTTGGGGCGAGAAGATTGTAATGCGTATTTTAGATTCATCAT
CGGCACAACTGGGTATCGAAAAGCTCGGTTATGAAGATGATCAACGGCTATTATATGAAGAAATGCTCGCCAAACCTCAA
GGGATGATATTAGTCACCGGCCCAACAGGTTCAGGTAAAACCGTATCTCTCTACACTGGCCTCAATATTCTTAATACCGA
AGAGCGTAATATTTCTACCGCAGAAGATCCGGTTGAAATTAACCTTGAGGGTGTTAACCAGGTGCATATTAATTTAAAAG
CGGGTTTAACCTTTGCATCGGCATTACGCTCATTTTTACGTCAAGATCCTGACGTGGTGATGGTCGGTGAAATCCGTGAT
TTAGAAACCGCCGAAATAGCGATTAAAGCGGCGCAAACTGGTCACCTAGTGTTATCAACCCTGCACACCAACTCAGCAGC
AGAAACCCTAACCCGTTTAATCAACATGGGTGTACCCGGCTATAACATTGCCAGCTCAGTTAACTTAATTATTGCCCAAC
GACTAGCCAGACGCTTATGCCCAGAATGCAAACACGAAGAAGAAGTACCTGTTGCTGAATTGCAACGTTTAGGCTTTACT
GAAGCTGATATAAACAAAGGTATTACGGTGTTTAAACCTGTCGGTTGTGAGCTTTGCTCTGGTGGTTATAAAGGTCGTGT
CGGCATTTACGAAGTAATGAAAATGAGTGATGAAATTGCCCGTACCATTATGGAAGGTGGCAACTCGCTGCAAATTGCCA
CCTTAGCCAAACAACAAGGCATGCGCGATTTACGCCAATCTGGCTTACTTAAAGTGATTCACGGCGTAACCAGCATTGCC
GAAATTAACCGTGTTACTAGCTTTTAA

Domains

Predicted by InterproScan.

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

(43-144)

Type II/IV secretion system protein (T2SSE)

(191-458)


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 Acinetobacter baylyi ADP1

59.002

98.768

0.583
  pilB Acinetobacter baumannii D1279779

58.615

99.12

0.581
  pilB Legionella pneumophila strain ERS1305867

56.762

98.944

0.562
  pilB Vibrio cholerae strain A1552

53.369

99.296

0.53
  pilB Vibrio parahaemolyticus RIMD 2210633

52.381

99.824

0.523
  pilB Vibrio campbellii strain DS40M4

51.51

99.12

0.511
  pilF Neisseria gonorrhoeae MS11

47.08

99.472

0.468
  pilF Thermus thermophilus HB27

38.036

98.592

0.375
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.548

93.486

0.37

Multiple sequence alignment