Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY01_RS16235 Genome accession   NZ_CP046839
Coordinates   2533381..2535069 (-) Length   562 a.a.
NCBI ID   WP_123161616.1    Uniprot ID   -
Organism   Vibrio cholerae strain 2011EL-1271     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2528381..2540069
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY01_RS16210 yacG 2529321..2529518 (-) 198 WP_000162863.1 DNA gyrase inhibitor YacG -
  GPY01_RS16215 zapD 2529802..2530542 (-) 741 WP_000207194.1 cell division protein ZapD -
  GPY01_RS16220 coaE 2530574..2531182 (-) 609 WP_170921665.1 dephospho-CoA kinase -
  GPY01_RS16225 pilD 2531179..2532054 (-) 876 WP_033931359.1 A24 family peptidase Machinery gene
  GPY01_RS16230 pilC 2532112..2533338 (-) 1227 WP_032471528.1 type II secretion system F family protein Machinery gene
  GPY01_RS16235 pilB 2533381..2535069 (-) 1689 WP_123161616.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY01_RS16240 pilA 2535076..2535528 (-) 453 WP_123161617.1 pilin Machinery gene
  GPY01_RS16245 nadC 2535773..2536663 (-) 891 WP_002053528.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY01_RS16250 ampD 2536963..2537508 (+) 546 WP_123161618.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY01_RS16255 fldB 2537803..2538321 (-) 519 WP_000690112.1 flavodoxin FldB -
  GPY01_RS16260 xerD 2538459..2539367 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62090.19 Da        Isoelectric Point: 6.0856

>NTDB_id=356365 GPY01_RS16235 WP_123161616.1 2533381..2535069(-) (pilB) [Vibrio cholerae strain 2011EL-1271]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHPQELTEQLSHIFGLPETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQLNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=356365 GPY01_RS16235 WP_123161616.1 2533381..2535069(-) (pilB) [Vibrio cholerae strain 2011EL-1271]
ATGCTTACCAACCTTGTTGCTATCTTGCGTCAGGCTGAATTAATCAGCGCAACACAAGAACAAGCGGTGGTTACACAGGT
TAGCGCTTCGGGAACTTCAGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACCCCCAAGAACTGACCGAGCAACTGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCAACTTGTGTCAACAGCTTGGGCTGCGTGAA
CTGATCACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTACTGCTGCTGGCGGTCTCAGACCCGACCTTGCT
GCAAGCCGAAGAAGAGTTTCGTTTTGCCACAGGATTACAAGTTGAACTGGCACTGGCCGATCACCGCGCGCTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGCTCAATTCAAGGCGCAGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGACGACGAGCTGCAATCCATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTACGTAAAGGTGCCTCGGATATTCATTTTGAGCCTTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGGATCTTGGTCGAAACTCAGCAACCAGCTAGCCATTTAAGCCGCCGTTTAGCCGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCACAAGATGGCCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTATCCACGCTTCCCACTTTATGGGGCGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCACAGCAAAAGCAGCTCTATCTCAACGCCCTCAAAAGACCGCAAGGGATGATC
TTGATGACTGGCCCCACCGGCAGCGGTAAAACCGTTTCGCTCTATACAGGGTTGCGCATTCTCAACACGTCACAAATCAA
TATCTCCACCGCGGAAGATCCAGTAGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTGATGGTCGGCGAAATACGCGATCTGGAAACT
GCAGAAATCGCGGTCAAAGCCGCGCAAACCGGCCACTTGGTGCTTTCCACCCTGCACACCAACTCGGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAACCTTGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACACTGCAAAATCGCGGTGCGCCCTTCCGCCCTATTGCAAAGCCAATTTGCATTTCAGCTCAATGAA
ATCTTGTATGAAGCGAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTAGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCAGAAGCCATCATGCAGCGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
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)

(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

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

53.033

90.925

0.482
  pilB Acinetobacter baylyi ADP1

50

93.238

0.466
  pilB Acinetobacter baumannii D1279779

50.193

92.171

0.463
  pilF Neisseria gonorrhoeae MS11

45.73

100

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

36.667

100

0.391
  pilF Thermus thermophilus HB27

39.668

96.441

0.383
  pilB Haemophilus influenzae 86-028NP

39.658

93.772

0.372
  pilB Haemophilus influenzae Rd KW20

39.279

93.772

0.368

Multiple sequence alignment