Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY13_RS12180 Genome accession   NZ_CP046823
Coordinates   2659000..2660688 (+) Length   562 a.a.
NCBI ID   WP_000957197.1    Uniprot ID   A0A2J9UYI3
Organism   Vibrio mimicus strain 06-2455     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2654000..2665688
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY13_RS12150 dsbC 2654313..2655065 (-) 753 WP_000115042.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -
  GPY13_RS12155 xerD 2655082..2655960 (-) 879 WP_187287773.1 site-specific tyrosine recombinase XerD -
  GPY13_RS12160 fldB 2656128..2656646 (+) 519 WP_000690114.1 flavodoxin FldB -
  GPY13_RS12165 ampD 2656704..2657252 (-) 549 WP_000564658.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY13_RS12170 nadC 2657418..2658308 (+) 891 WP_032470672.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY13_RS12175 - 2658553..2658990 (+) 438 WP_000649324.1 type IV pilin protein -
  GPY13_RS12180 pilB 2659000..2660688 (+) 1689 WP_000957197.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY13_RS12185 pilC 2660727..2661953 (+) 1227 WP_000648444.1 type II secretion system F family protein Machinery gene
  GPY13_RS12190 pilD 2662016..2662891 (+) 876 WP_000418513.1 A24 family peptidase Machinery gene
  GPY13_RS12195 coaE 2662888..2663496 (+) 609 WP_000011562.1 dephospho-CoA kinase -
  GPY13_RS12200 zapD 2663528..2664268 (+) 741 WP_000207199.1 cell division protein ZapD -
  GPY13_RS12205 yacG 2664519..2664716 (+) 198 WP_000162865.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62023.95 Da        Isoelectric Point: 5.6782

>NTDB_id=408461 GPY13_RS12180 WP_000957197.1 2659000..2660688(+) (pilB) [Vibrio mimicus strain 06-2455]
MLTNLVAILRQAELISATQEQAVVEQVSTSGTSVPEALLGLGIFHAQELTEQISHIFGLPETDLSHYDYPNLCQQLGLRE
LITRYEALPIAKQGNLLQLAVADPTLLQAEEEFRFATGSQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVGDEELQSIEDLSQDDSPVSRFINQILLDAVRKGASDIHFEPYEAQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLNSDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKVAVHPSAILQNQFAFQPQE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMRRATIHQIESLAKTNGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=408461 GPY13_RS12180 WP_000957197.1 2659000..2660688(+) (pilB) [Vibrio mimicus strain 06-2455]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCAACACAAGAACAAGCGGTGGTCGAACAGGT
CAGCACTTCTGGCACTTCTGTGCCGGAAGCGCTGCTTGGTTTAGGTATTTTCCACGCGCAAGAACTCACTGAACAAATCA
GCCATATTTTCGGCTTACCGGAAACCGATTTAAGCCACTACGATTACCCAAACCTCTGCCAACAACTTGGTTTACGCGAG
CTGATTACCCGTTATGAAGCGCTCCCCATTGCCAAACAAGGCAATCTGCTTCAACTCGCCGTCGCTGACCCCACTTTACT
GCAAGCTGAAGAAGAGTTTCGCTTTGCCACGGGCTCACAAGTGGAGTTGGCACTCGCAGATCATCGTGCACTACAAGCAG
CCATTCGTCGTTTGTATGGCCGATCCATTCAGGGTGCCGCCAACCAAGGTAAGGAGATCAGCCAAGATGAACTAGCCAAT
TTGGTCAAAGTCGGGGATGAGGAACTTCAGTCAATTGAAGATTTAAGCCAAGATGATTCTCCGGTCAGCCGCTTTATCAA
CCAAATATTGCTGGATGCGGTACGTAAAGGCGCATCCGACATTCATTTCGAGCCTTATGAAGCGCAATACCGCATTCGCC
TGCGCTGCGATGGTATTTTAGTGGAAACCCAACAACCTGCCAGCCATTTAAGCCGTCGCTTAGCCGCCCGAATTAAGATT
CTCTCTAAACTGGACATTGCTGAACGCCGCTTACCACAAGATGGTCGAATAAAGCTGCGCCTTAATAGTGATACCGCGAT
TGATATGCGCGTATCTACTTTACCCACCTTGTGGGGTGAAAAAATTGTATTACGCCTGCTCGATAGCAGCGCTGCGAATC
TGGATATTGATAAGCTCGGTTACAATCCGCAGCAGAAGCAACTTTATCTCAATGCACTCAAGAGACCGCAAGGAATGATA
TTGATGACGGGCCCGACTGGTAGCGGCAAAACCGTCTCACTCTATACTGGGCTGCGCATTCTCAATACCTCGCAAATTAA
TATTTCCACCGCCGAAGATCCGGTTGAAATTAACCTCTCCGGCATTAACCAAGTCCAGGTGCAACCGAAAATCGGTTTTG
GCTTTGCCGAAGCACTACGCTCTTTTCTACGTCAAGACCCTGATGTAGTGATGGTGGGCGAAATTCGCGATTTGGAAACC
GCAGAAATTGCGGTCAAAGCGGCGCAAACGGGTCACTTGGTGCTTTCAACTTTGCATACCAACTCAGCAGCGGAAACTGT
CATTCGCTTAGCCAACATGGGGGTTGAGCCCTTTAACCTCGCTTCGTCACTTAGTTTAATTATCGCCCAGCGCCTTGCTC
GCCGCTTATGTAAACACTGCAAAGTGGCGGTACATCCGTCAGCCATACTGCAAAATCAGTTTGCCTTTCAACCTCAAGAA
ATTTTGTATGAAGCGAATGCGGCAGGCTGCAACGAATGCACCGGTGGTTATTCAGGGCGAGTCGGGATCTATGAAGTCAT
GGCATTTAACACTGAACTGGCAGAGGCCATTATGCGCCGTGCCACCATTCACCAGATTGAAAGTTTAGCCAAAACCAATG
GTATGCAAACCCTGCAAGAGTCCGGCCTTGAAAAGCTGCGTGAAGGCATCACCAGTTTTGCCGAGCTGCAACGTGTGCTT
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
  AlphaFold DB A0A2J9UYI3

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

95.374

100

0.954
  pilB Vibrio parahaemolyticus RIMD 2210633

73.31

100

0.733
  pilB Vibrio campbellii strain DS40M4

73.132

100

0.731
  pilB Legionella pneumophila strain ERS1305867

51.238

93.416

0.479
  pilB Acinetobacter baylyi ADP1

50.193

92.171

0.463
  pilB Acinetobacter baumannii D1279779

49.904

92.349

0.461
  pilF Neisseria gonorrhoeae MS11

45.73

100

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

37.748

100

0.406
  pilF Thermus thermophilus HB27

39.556

96.263

0.381
  pilB Haemophilus influenzae 86-028NP

39.394

93.95

0.37
  pilB Haemophilus influenzae Rd KW20

39.122

93.238

0.365

Multiple sequence alignment