Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACLRDL_RS12625 Genome accession   NZ_CP178387
Coordinates   2770620..2772308 (+) Length   562 a.a.
NCBI ID   WP_000957148.1    Uniprot ID   -
Organism   Vibrio cholerae isolate CTMA_1842     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2765620..2777308
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACLRDL_RS12595 (ACLRDL_12595) dsbC 2765690..2766442 (-) 753 WP_000115048.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -
  ACLRDL_RS12600 (ACLRDL_12600) xerD 2766459..2767367 (-) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  ACLRDL_RS12605 (ACLRDL_12605) fldB 2767505..2768023 (+) 519 WP_000690112.1 flavodoxin FldB -
  ACLRDL_RS12610 (ACLRDL_12610) ampD 2768174..2768719 (-) 546 WP_000567319.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACLRDL_RS12615 (ACLRDL_12615) nadC 2769017..2769907 (+) 891 WP_000665278.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACLRDL_RS12620 (ACLRDL_12620) - 2770152..2770619 (+) 468 WP_000995326.1 pilin -
  ACLRDL_RS12625 (ACLRDL_12625) pilB 2770620..2772308 (+) 1689 WP_000957148.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACLRDL_RS12630 (ACLRDL_12630) pilC 2772351..2773577 (+) 1227 WP_000648509.1 type II secretion system F family protein Machinery gene
  ACLRDL_RS12635 (ACLRDL_12635) pilD 2773635..2774510 (+) 876 WP_000418746.1 prepilin peptidase Machinery gene
  ACLRDL_RS12640 (ACLRDL_12640) coaE 2774507..2775115 (+) 609 WP_000011553.1 dephospho-CoA kinase -
  ACLRDL_RS12645 (ACLRDL_12645) zapD 2775147..2775887 (+) 741 WP_000207194.1 cell division protein ZapD -
  ACLRDL_RS12650 (ACLRDL_12650) yacG 2776045..2776242 (+) 198 WP_000162865.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62059.17 Da        Isoelectric Point: 6.0863

>NTDB_id=1089401 ACLRDL_RS12625 WP_000957148.1 2770620..2772308(+) (pilB) [Vibrio cholerae isolate CTMA_1842]
MLTNLIAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHAQELTEQLSHIFGLPETDLSRYDYAPLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVGDEELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANTAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=1089401 ACLRDL_RS12625 WP_000957148.1 2770620..2772308(+) (pilB) [Vibrio cholerae isolate CTMA_1842]
ATGCTCACCAACCTTATTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCAACGCAAGAACAAGCGGTGGTTACACAGGT
TAGCGCTTCGGGAACTTCAGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACGCCCAAGAGCTGACCGAGCAACTGA
GCCATATTTTCGGCTTGCCAGAAACCGACCTTAGCCGCTACGACTACGCCCCCCTGTGTCAACAGCTTGGGCTGCGTGAA
CTAATAACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTACTGCTGCTGGCGGTCTCTGACCCCACATTACT
GCAAGCCGAAGAAGAGTTTCGCTTTGCCACAGGTTTACAAGTTGAACTGGCACTGGCCGATCACCGCGCGCTGCAAGCGG
CGATTCGCCGTTTGTATGGCCGCTCGATTCAAGGCGCCGCTAACCAAGGGAAAGAGATCAGCCAAGATGAATTGGCCAAT
CTGGTCAAAGTCGGTGATGAAGAACTTCAATCCATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTGCGTAAAGGCGCCTCCGATATTCATTTTGAGCCGTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGCATTTTGGTGGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCCGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCACAAGATGGCCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTATCCACGCTTCCCACTTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAACGCCCTCAAAAGACCGCAAGGGATGATT
TTGATGACAGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCAGAAGATCCGGTAGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTACGCCAAGATCCGGATGTGGTGATGGTCGGCGAAATACGCGATCTGGAAACT
GCAGAAATCGCGGTAAAAGCCGCGCAAACCGGCCACTTGGTGCTTTCTACCCTGCATACCAACTCGGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAATCTGGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACATTGCAAAATCGCGGTGCGCCCTTCTGCCCTATTGCAAAGCCAATTTGCATTTCAACCCAATGAA
ATCTTGTATGAAGCGAATACGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
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

98.754

100

0.988
  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

51.619

93.416

0.482
  pilB Acinetobacter baumannii D1279779

50.772

92.171

0.468
  pilB Acinetobacter baylyi ADP1

50.484

91.993

0.464
  pilF Neisseria gonorrhoeae MS11

45.745

100

0.459
  pilB/pilB1 Synechocystis sp. PCC 6803

38.245

100

0.411
  pilF Thermus thermophilus HB27

40.85

96.263

0.393
  pilB Haemophilus influenzae 86-028NP

39.469

93.772

0.37

Multiple sequence alignment