Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   CCR98_RS16485 Genome accession   NZ_CP021768
Coordinates   3514733..3516463 (-) Length   576 a.a.
NCBI ID   WP_087923446.1    Uniprot ID   -
Organism   Stenotrophomonas sp. WZN-1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 3516688..3532659 3514733..3516463 flank 225


Gene organization within MGE regions


Location: 3514733..3532659
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CCR98_RS16485 (CCR98_16490) pilB 3514733..3516463 (-) 1731 WP_087923446.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CCR98_RS16490 (CCR98_16495) - 3516688..3517095 (-) 408 WP_087923447.1 pilin -
  CCR98_RS16495 (CCR98_16500) pilA/pilAI 3517212..3517628 (-) 417 WP_087923448.1 pilin Machinery gene
  CCR98_RS16500 (CCR98_16505) pilC 3517984..3519243 (+) 1260 WP_087923449.1 type II secretion system F family protein Machinery gene
  CCR98_RS16505 (CCR98_16510) - 3519251..3520114 (+) 864 WP_005418626.1 A24 family peptidase -
  CCR98_RS16510 (CCR98_16515) coaE 3520126..3520737 (+) 612 WP_087923450.1 dephospho-CoA kinase -
  CCR98_RS21120 - 3520811..3521089 (-) 279 WP_157721541.1 hypothetical protein -
  CCR98_RS21125 - 3521554..3522201 (-) 648 WP_157721542.1 hypothetical protein -
  CCR98_RS16525 (CCR98_16530) - 3523087..3523473 (-) 387 WP_087923453.1 hypothetical protein -
  CCR98_RS16530 (CCR98_16535) - 3523964..3525334 (-) 1371 WP_032957212.1 HAMP domain-containing sensor histidine kinase -
  CCR98_RS16535 (CCR98_16540) - 3525297..3525974 (-) 678 WP_005410804.1 response regulator transcription factor -
  CCR98_RS16540 (CCR98_16545) - 3526136..3526597 (-) 462 WP_087923454.1 hypothetical protein -
  CCR98_RS16545 (CCR98_16550) - 3526713..3527183 (-) 471 WP_087923455.1 hypothetical protein -
  CCR98_RS16550 (CCR98_16555) - 3527279..3527758 (-) 480 WP_087923456.1 hypothetical protein -
  CCR98_RS16555 (CCR98_16560) rimK 3528018..3528896 (-) 879 WP_005410807.1 30S ribosomal protein S6--L-glutamate ligase -
  CCR98_RS16560 (CCR98_16565) - 3529064..3529429 (+) 366 WP_232463040.1 hypothetical protein -
  CCR98_RS16565 (CCR98_16570) - 3529508..3529930 (+) 423 WP_087923458.1 thioesterase family protein -
  CCR98_RS16570 (CCR98_16575) - 3530099..3531133 (-) 1035 WP_232463041.1 hypothetical protein -
  CCR98_RS16575 (CCR98_16580) - 3531375..3532253 (+) 879 WP_232463042.1 PoNe immunity protein domain-containing protein -
  CCR98_RS16580 (CCR98_16585) - 3532255..3532659 (-) 405 WP_087923461.1 DUF805 domain-containing protein -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62186.12 Da        Isoelectric Point: 5.8733

>NTDB_id=233119 CCR98_RS16485 WP_087923446.1 3514733..3516463(-) (pilB) [Stenotrophomonas sp. WZN-1]
MNAVTTANLVGITGLARRLVQDGALDEASARDAMAKAAAARQPLPTWFAQNKVVGAAQLAAANAVEFGMPLFDVSTFDAS
QNAMSLVSEELLRKHNVLPLFKRGGKLFVGTSNPTHSLDEIKFHTNLVVEPILVDEDQIRRTLEQWHASHDTLGDALGGD
DDGMGNLDVAAGDEDLGAGGDSGIDAKGDDTPVVKFVNKVLVDAIRKGASDIHFEPYEDDYRVRLRIDGLLKMVARAPVK
LNQRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEPDQQKLF
LEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDI
IMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNTCKRPSNLPEH
ALLAEGFTQAQLDAGIELYEAVGCDECTEGYKGRTGLYQVMPMTDEIATIVLAGGNALQIAEAAQQIGVNDLRQSALKKA
AAGVTSLAEINRVTKD

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=233119 CCR98_RS16485 WP_087923446.1 3514733..3516463(-) (pilB) [Stenotrophomonas sp. WZN-1]
ATGAACGCCGTAACCACCGCCAATCTCGTCGGCATCACCGGCCTGGCCCGTCGCCTGGTCCAGGATGGTGCGCTGGACGA
GGCTTCCGCCCGCGATGCCATGGCCAAGGCCGCTGCCGCCCGGCAGCCGCTGCCGACCTGGTTCGCGCAGAACAAGGTGG
TTGGGGCGGCCCAGCTGGCGGCCGCCAACGCGGTCGAGTTCGGCATGCCGCTGTTCGACGTGTCCACGTTCGACGCCAGC
CAGAACGCGATGAGCCTGGTCAGCGAGGAGCTGCTGCGCAAGCACAACGTGCTGCCGCTGTTCAAACGCGGCGGCAAGCT
GTTCGTGGGCACCAGCAACCCGACCCATTCGCTGGACGAGATCAAGTTCCACACCAACCTGGTGGTGGAGCCGATCCTGG
TGGATGAAGACCAGATCCGCCGCACGCTCGAGCAGTGGCATGCCAGCCACGACACGCTGGGCGACGCGCTGGGGGGCGAT
GACGATGGCATGGGCAACCTGGACGTTGCGGCCGGAGACGAGGATCTCGGTGCCGGTGGCGACTCCGGCATCGATGCCAA
GGGCGATGACACCCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGACGCGATCCGCAAGGGCGCCTCGGACATCCACT
TCGAGCCCTATGAAGACGACTACCGCGTGCGCCTGCGCATCGACGGCCTGCTGAAGATGGTGGCGCGCGCGCCGGTGAAG
CTGAACCAGCGCATCGCCGCGCGCCTGAAGGTGATGGCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGACGGACG
CATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGATTTCCGCGTGAGCACGCTGCCGACCCTGTTCGGCGAGAAGGTGG
TGCTGCGTATCCTGGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGTTACGAGCCGGACCAGCAGAAGCTGTTC
CTGGAAGCCATCCACAAGCCGTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACGGTGTCGCTGTACAC
CGCGCTGGGCATTCTCAACGACGAGACGCGCAACATCTCCACCGCCGAAGACCCGGTGGAAATCCGCCTGCCCGGCGTCA
ACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCGGCGCTGCGTTCGTTCCTGCGACAGGATCCGGACATC
ATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATCGCGATCAAGGCGGCGCAGACCGGTCACATGGTGCTGTC
CACGCTGCATACCAACGATGCGCCGCAGACCATCGCGCGCCTGATGAACATGGGCATCGCGCCGTACAACATCACCAGCT
CGGTGACCCTGGTGATCGCCCAGCGCCTGGCGCGCCGGCTGTGCAACACCTGCAAGCGCCCGTCCAATCTGCCCGAGCAT
GCGTTGCTGGCCGAAGGCTTCACCCAGGCGCAGCTGGATGCGGGTATTGAACTGTACGAGGCAGTGGGCTGCGATGAGTG
CACCGAGGGCTACAAGGGCCGTACCGGTCTCTACCAGGTGATGCCGATGACCGACGAGATCGCCACGATCGTGCTGGCCG
GTGGCAATGCGTTGCAGATTGCTGAAGCTGCCCAGCAGATCGGGGTGAACGATCTGCGCCAGTCGGCGTTGAAGAAGGCG
GCTGCGGGCGTCACCAGCCTGGCCGAGATCAATCGCGTTACCAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(199-466)

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

(49-150)


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 Acinetobacter baylyi ADP1

54.795

100

0.556
  pilB Acinetobacter baumannii D1279779

55.268

100

0.556
  pilB Legionella pneumophila strain ERS1305867

52.197

98.785

0.516
  pilF Neisseria gonorrhoeae MS11

48.944

98.611

0.483
  pilB Vibrio cholerae strain A1552

48.601

99.306

0.483
  pilB Vibrio parahaemolyticus RIMD 2210633

45.455

99.306

0.451
  pilB Vibrio campbellii strain DS40M4

45.167

98.785

0.446

Multiple sequence alignment