Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HPY04_RS02390 Genome accession   NZ_CP053744
Coordinates   500111..501799 (-) Length   562 a.a.
NCBI ID   WP_175248721.1    Uniprot ID   -
Organism   Vibrio cholerae strain SA3G     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 495111..506799
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPY04_RS02365 (HPY04_02365) yacG 496177..496374 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  HPY04_RS02370 (HPY04_02370) zapD 496532..497272 (-) 741 WP_000207194.1 cell division protein ZapD -
  HPY04_RS02375 (HPY04_02375) coaE 497304..497912 (-) 609 WP_032479520.1 dephospho-CoA kinase -
  HPY04_RS02380 (HPY04_02380) pilD 497909..498784 (-) 876 WP_175248719.1 A24 family peptidase Machinery gene
  HPY04_RS02385 (HPY04_02385) pilC 498842..500068 (-) 1227 WP_175248720.1 type II secretion system F family protein Machinery gene
  HPY04_RS02390 (HPY04_02390) pilB 500111..501799 (-) 1689 WP_175248721.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HPY04_RS02395 (HPY04_02395) pilA 501801..502232 (-) 432 WP_057563244.1 pilin Machinery gene
  HPY04_RS02400 (HPY04_02400) nadC 502477..503367 (-) 891 WP_000665277.1 carboxylating nicotinate-nucleotide diphosphorylase -
  HPY04_RS02405 (HPY04_02405) ampD 503669..504214 (+) 546 WP_000567314.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  HPY04_RS02410 (HPY04_02410) fldB 504363..504881 (-) 519 WP_019828645.1 flavodoxin FldB -
  HPY04_RS02415 (HPY04_02415) xerD 505019..505927 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  HPY04_RS02420 (HPY04_02420) dsbC 505944..506696 (+) 753 WP_000115049.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62065.14 Da        Isoelectric Point: 6.0856

>NTDB_id=446775 HPY04_RS02390 WP_175248721.1 500111..501799(-) (pilB) [Vibrio cholerae strain SA3G]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHAQELTEQLSHIFGLPETDLSRYDYAPLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGFEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=446775 HPY04_RS02390 WP_175248721.1 500111..501799(-) (pilB) [Vibrio cholerae strain SA3G]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCAACGCAAGAACAAGCGGTGGTTACGCAGGT
TAGCGCCTCGGGAACTTCGGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACGCCCAAGAGCTGACCGAGCAACTGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGTTACGACTACGCCCCCCTGTGCCAACAGCTTGGGCTGCGTGAA
CTGATTACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTATTGCTACTCGCGGTCTCTGACCCAACCTTACT
GCAAGCCGAAGAAGAGTTTCGTTTTGCCACAGGATTACAAGTTGAACTGGCACTGGCCGATCACCGCGCGCTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGCTCAATTCAAGGCGCAGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGATGACGAGCTGCAATCCATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTGCGCAAAGGCGCCTCCGATATTCATTTTGAGCCTTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGCATTTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCCGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCACAAGATGGCCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTATCCACGCTTCCCACTTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAACGCCCTCAAAAGACCGCAAGGGATGATT
TTGATGACAGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCAGAAGATCCGGTGGAAATTAACCTGTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTGATGGTCGGCGAAATACGCGATCTGGAAACT
GCAGAAATCGCGGTCAAAGCCGCGCAAACCGGCCACTTGGTGCTTTCCACCCTGCACACCAACTCGGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAACCTTGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACATTGCAAAATTGCGGTGCGCCCTTCCGCCCTATTGCAAAGCCAATTTGCGTTTCAGCCCAATGAA
ATCTTATATGAAGCCAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCTTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
TATTTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(41-141)


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 cholerae strain A1552

99.288

100

0.993
  pilB Vibrio parahaemolyticus RIMD 2210633

73.843

100

0.738
  pilB Vibrio campbellii strain DS40M4

73.665

100

0.737
  pilB Legionella pneumophila strain ERS1305867

51.81

93.416

0.484
  pilB Acinetobacter baylyi ADP1

50.29

91.993

0.463
  pilB Acinetobacter baumannii D1279779

50.097

91.993

0.461
  pilF Neisseria gonorrhoeae MS11

45.552

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

37.252

100

0.4
  pilF Thermus thermophilus HB27

40.481

96.263

0.39
  pilB Haemophilus influenzae 86-028NP

39.279

93.772

0.368