Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   Sa5Y_RS02450 Genome accession   NZ_CP028892
Coordinates   487424..489112 (-) Length   562 a.a.
NCBI ID   WP_108243691.1    Uniprot ID   -
Organism   Vibrio cholerae strain Sa5Y     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 482424..494112
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Sa5Y_RS02420 (Sa5Y_VC00477) yacG 483490..483687 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  Sa5Y_RS02430 (Sa5Y_VC00478) zapD 483845..484585 (-) 741 WP_000207193.1 cell division protein ZapD -
  Sa5Y_RS02435 (Sa5Y_VC00479) coaE 484617..485225 (-) 609 WP_162298799.1 dephospho-CoA kinase -
  Sa5Y_RS02440 (Sa5Y_VC00480) pilD 485222..486097 (-) 876 WP_033932898.1 A24 family peptidase Machinery gene
  Sa5Y_RS02445 (Sa5Y_VC00481) pilC 486155..487381 (-) 1227 WP_000648506.1 type II secretion system F family protein Machinery gene
  Sa5Y_RS02450 (Sa5Y_VC00482) pilB 487424..489112 (-) 1689 WP_108243691.1 type IV-A pilus assembly ATPase PilB Machinery gene
  Sa5Y_RS02455 (Sa5Y_VC00483) pilA 489116..489544 (-) 429 WP_094393042.1 pilin Machinery gene
  Sa5Y_RS02460 (Sa5Y_VC00484) nadC 489789..490679 (-) 891 WP_094393041.1 carboxylating nicotinate-nucleotide diphosphorylase -
  Sa5Y_RS02470 (Sa5Y_VC00485) ampD 490981..491526 (+) 546 WP_094393039.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  Sa5Y_RS02475 (Sa5Y_VC00486) fldB 491675..492193 (-) 519 WP_069503252.1 flavodoxin FldB -
  Sa5Y_RS02480 (Sa5Y_VC00487) xerD 492331..493239 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  Sa5Y_RS02485 (Sa5Y_VC00488) dsbC 493256..494008 (+) 753 WP_059260674.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62083.19 Da        Isoelectric Point: 6.1395

>NTDB_id=288209 Sa5Y_RS02450 WP_108243691.1 487424..489112(-) (pilB) [Vibrio cholerae strain Sa5Y]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGFFPPRELTEQLSHIFGLPETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAT
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=288209 Sa5Y_RS02450 WP_108243691.1 487424..489112(-) (pilB) [Vibrio cholerae strain Sa5Y]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCGACGCAAGAACAAGCGGTGGTTACCCAGGT
TAGCGCTTCGGGGACTTCAGTGCCCGAGGCGCTGCTTGGTTTAGGTTTTTTCCCCCCCCGAGAACTCACCGAGCAACTGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCAACTTGTGCCAACAGCTTGGGCTACGTGAA
CTGATTACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTATTGCTGCTGGCGGTCTCTGACCCCACATTACT
GCAAGCCGAAGAAGAGTTTCGCTTTGCCACAGGTTTACAAGTTGAACTGGCACTAGCCGATCACCGCGCGCTGCAAGCGG
CGATTCGCCGTTTGTATGGCCGCTCGATTCAAGGCGCCGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCACT
CTGGTTAAAGTCAGTGATGACGAGCTACAATCGATCGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTACTGCTCGATGCGGTGCGTAAAGGCGCCTCCGATATTCATTTTGAGCCGTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGCATTTTGGTGGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCCGCGCGGATAAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGTTTGCCGCAAGACGGGCGGATTAAACTGCGCCTAAGCCGTGATACCGCGAT
TGATATGCGTGTATCCACGCTTCCCACTTTATGGGGCGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAACGCCCTCAAAAGACCGCAAGGGATGATT
TTGATGACCGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTTAACACGTCACAGATCAA
TATCTCCACCGCGGAAGATCCGGTGGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTGATGGTCGGCGAAATACGCGATCTGGAAACT
GCAGAGATCGCGGTAAAAGCCGCACAAACCGGTCACTTGGTGCTTTCCACCCTGCACACCAACTCAGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAACCTCGCGTCCTCACTCAGTTTAATCATCGCCCAGCGCCTCGCGC
GCCGCCTATGCAAACATTGCAAAATCGCGGTGCGCCCTTCTGCCCTATTGCAAAGTCAATTTGCGTTTCAGCCCAATGAA
ATCTTGTATGAAGCCAATGCGGCGGGGTGTAACGAGTGTACGGGCGGATATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAGCGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTACAGCGTGTGCTC
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)

(40-141)


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

74.021

100

0.74
  pilB Vibrio campbellii strain DS40M4

73.843

100

0.738
  pilB Legionella pneumophila strain ERS1305867

52.838

90.925

0.48
  pilB Acinetobacter baylyi ADP1

50.385

92.527

0.466
  pilB Acinetobacter baumannii D1279779

50

92.883

0.464
  pilF Neisseria gonorrhoeae MS11

45.907

100

0.459
  pilB/pilB1 Synechocystis sp. PCC 6803

37.043

100

0.397
  pilF Thermus thermophilus HB27

39.668

96.441

0.383

Multiple sequence alignment