Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PMYSY11_RS18410 Genome accession   NZ_LR215729
Coordinates   3995392..3997095 (+) Length   567 a.a.
NCBI ID   WP_150547671.1    Uniprot ID   A0A653DZM5
Organism   Pseudomonas marincola strain YSy11     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3990392..4002095
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PMYSY11_RS18395 (PMYSY11_3793) nadC 3992982..3993830 (+) 849 WP_150547668.1 carboxylating nicotinate-nucleotide diphosphorylase -
  PMYSY11_RS18400 (PMYSY11_3794) - 3993918..3994370 (-) 453 WP_150547669.1 pilin -
  PMYSY11_RS18405 (PMYSY11_3795) - 3994728..3995171 (-) 444 WP_150547670.1 pilin -
  PMYSY11_RS18410 (PMYSY11_3796) pilB 3995392..3997095 (+) 1704 WP_150547671.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PMYSY11_RS18415 (PMYSY11_3797) pilC 3997098..3998315 (+) 1218 WP_150547672.1 type II secretion system F family protein Machinery gene
  PMYSY11_RS18420 (PMYSY11_3798) pilD 3998319..3999194 (+) 876 WP_150547673.1 prepilin peptidase Machinery gene
  PMYSY11_RS18425 (PMYSY11_3799) coaE 3999476..4000084 (+) 609 WP_069898092.1 dephospho-CoA kinase -
  PMYSY11_RS18430 (PMYSY11_3800) yacG 4000081..4000287 (+) 207 WP_069898093.1 DNA gyrase inhibitor YacG -
  PMYSY11_RS18435 (PMYSY11_3802) - 4001151..4001828 (-) 678 WP_150547674.1 energy-coupling factor ABC transporter permease -

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62487.53 Da        Isoelectric Point: 5.3314

>NTDB_id=1125932 PMYSY11_RS18410 WP_150547671.1 3995392..3997095(+) (pilB) [Pseudomonas marincola strain YSy11]
MNDRVSLTGLAKQMVIAELLDEKAALNAQQQAQRNKLSLVTYVVQSKLVKSKDMAELAMEQFGVAFVDLNSIDKEALPKD
LISEKLARQHRALPLWRRGNKLFIAVSDPSNHQAVTDVQFSTGLNTEAILVEDDKLGHALDKFFESATGGLDDMADIDFD
DVDTAAVDDENQVVDGSAQDDDAPVVRFVNKMLLDAIRGGSSDLHFEPYEKIYRVRLRTDGILHEVARPPIQLAPRISAR
LKVMAALDISERRKPQDGRIKMRISKSKSIDFRVNTLPTLWGEKIVMRILDPTSAQMGIDALGYEEDQKALYLEALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTPDVNISTAEDPVEINLEGINQVNVNPKQGMDFTQALRAFLRQDPDIIMVGEIRD
LDTASIAIKAAQTGHMVMSTLHTNSAAETLTRMRNMGVASFNIATSVNLIIAQRLARKLCQTCKKAVDVPREALLEEGFP
ADKIGSFKIYSPVGCENCNGGYKGRVGIYEVVKNTTALQRIIMEEGNSIEISAQMRKDGFNDLRTSALVKAMQGVTSLEE
VNRVTKD

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=1125932 PMYSY11_RS18410 WP_150547671.1 3995392..3997095(+) (pilB) [Pseudomonas marincola strain YSy11]
ATGAACGATCGCGTATCCCTCACCGGACTGGCCAAGCAAATGGTCATTGCCGAGTTGCTTGATGAAAAAGCCGCCCTCAA
TGCCCAGCAACAGGCCCAGCGCAACAAGCTTTCTCTTGTTACCTATGTCGTTCAAAGCAAACTGGTAAAAAGCAAGGACA
TGGCCGAACTGGCTATGGAGCAATTCGGCGTTGCCTTTGTCGACCTCAACAGCATCGATAAAGAAGCTCTCCCCAAAGAT
TTGATCAGCGAAAAACTGGCGCGCCAGCACCGCGCCCTGCCTCTATGGCGGCGCGGCAACAAGCTGTTTATCGCCGTATC
CGATCCTTCCAACCACCAAGCCGTGACCGATGTTCAATTCAGCACCGGACTGAATACCGAAGCGATCTTGGTTGAGGATG
ACAAGCTCGGCCACGCTCTCGACAAATTTTTCGAGTCGGCTACCGGCGGCCTCGATGACATGGCTGATATTGACTTTGAT
GATGTCGATACGGCCGCTGTAGATGATGAAAACCAGGTTGTTGACGGTTCCGCTCAGGATGATGACGCCCCCGTGGTGCG
CTTCGTCAATAAGATGCTGCTAGACGCAATTCGCGGCGGCTCATCCGACTTGCACTTTGAACCCTACGAGAAAATTTACC
GTGTGCGTTTGCGCACCGACGGTATTTTGCATGAAGTGGCCCGCCCACCGATTCAGCTGGCGCCACGCATTTCTGCGCGC
CTCAAGGTAATGGCTGCATTGGATATTTCCGAGCGCCGCAAGCCGCAAGACGGGCGCATTAAAATGCGCATATCGAAAAG
TAAATCCATCGACTTCCGGGTAAACACCCTGCCAACGCTGTGGGGCGAGAAGATCGTAATGCGTATTCTCGACCCAACGA
GTGCACAGATGGGCATTGATGCGCTGGGTTATGAAGAAGACCAGAAAGCCCTGTACCTCGAAGCCCTCAAACAGCCGCAA
GGGATGATCCTAGTTACAGGCCCTACCGGTTCAGGTAAAACTGTTTCGCTGTATACCGGCCTGAACATCCTCAACACCCC
GGATGTGAACATTTCCACGGCGGAAGACCCGGTCGAGATCAACCTCGAAGGCATCAATCAGGTCAACGTCAACCCGAAAC
AGGGCATGGACTTTACCCAAGCGTTGCGCGCCTTCTTGCGCCAAGACCCGGATATCATCATGGTCGGTGAGATTCGCGAC
CTGGACACGGCGTCCATTGCGATCAAGGCTGCGCAAACCGGCCACATGGTGATGTCGACTCTGCACACCAACAGCGCGGC
TGAAACCCTGACCCGTATGCGCAACATGGGCGTAGCCTCATTCAACATTGCCACCTCGGTGAACCTGATTATTGCCCAGC
GCCTGGCCCGTAAACTCTGCCAAACCTGCAAGAAGGCGGTAGACGTACCGCGCGAGGCGTTGCTGGAAGAGGGCTTCCCG
GCCGACAAGATCGGCAGTTTCAAGATTTACAGCCCGGTTGGCTGCGAAAATTGCAACGGTGGCTACAAAGGCCGTGTCGG
AATATATGAAGTGGTTAAAAACACGACGGCCCTGCAGCGGATTATCATGGAGGAAGGCAACTCCATCGAGATTTCAGCGC
AGATGCGCAAAGACGGTTTTAATGACCTACGCACCTCGGCATTGGTGAAAGCCATGCAAGGCGTCACCAGCCTCGAGGAA
GTCAACCGGGTGACCAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

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

(44-147)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A653DZM5

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 Acinetobacter baumannii D1279779

58.834

99.824

0.587
  pilB Acinetobacter baylyi ADP1

57.624

99.471

0.573
  pilB Legionella pneumophila strain ERS1305867

54.594

99.824

0.545
  pilB Vibrio cholerae strain A1552

49.911

98.942

0.494
  pilB Vibrio campbellii strain DS40M4

48.336

100

0.487
  pilF Neisseria gonorrhoeae MS11

48.404

99.471

0.481
  pilB Vibrio parahaemolyticus RIMD 2210633

49.815

95.238

0.474
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.91

93.827

0.365
  pilB/pilB1 Synechocystis sp. PCC 6803

38.826

93.122

0.362

Multiple sequence alignment