Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   L9B60_RS16000 Genome accession   NZ_CP094975
Coordinates   3487867..3489564 (-) Length   565 a.a.
NCBI ID   WP_249671621.1    Uniprot ID   -
Organism   Pseudomonas abieticivorans strain PIA16     
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 3489791..3503240 3487867..3489564 flank 227


Gene organization within MGE regions


Location: 3487867..3503240
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  L9B60_RS16000 pilB 3487867..3489564 (-) 1698 WP_249671621.1 type IV-A pilus assembly ATPase PilB Machinery gene
  L9B60_RS16005 pilA/pilAI 3489791..3490186 (+) 396 WP_249679751.1 pilin Machinery gene
  L9B60_RS16010 - 3490306..3490722 (+) 417 WP_249671622.1 pilin -
  L9B60_RS16020 - 3491051..3491269 (-) 219 WP_249671623.1 hypothetical protein -
  L9B60_RS16025 - 3491626..3491940 (+) 315 WP_249679752.1 HNH endonuclease -
  L9B60_RS16030 - 3491989..3492600 (-) 612 WP_249671624.1 recombinase family protein -
  L9B60_RS16035 - 3492798..3496247 (+) 3450 WP_249671625.1 ATP-binding protein -
  L9B60_RS16040 - 3496244..3496960 (+) 717 WP_249671626.1 hypothetical protein -
  L9B60_RS16045 - 3497160..3498296 (+) 1137 WP_249671627.1 nucleoid-associated protein -
  L9B60_RS16050 - 3498289..3499515 (+) 1227 WP_249671628.1 hypothetical protein -
  L9B60_RS16055 - 3499948..3500727 (+) 780 WP_249671629.1 hypothetical protein -
  L9B60_RS16060 - 3501012..3501263 (-) 252 WP_349631951.1 helix-turn-helix domain-containing protein -
  L9B60_RS16065 - 3501363..3501947 (+) 585 WP_249671631.1 hypothetical protein -
  L9B60_RS16070 - 3502005..3503240 (-) 1236 WP_249671632.1 site-specific integrase -

Sequence

Protein


Download         Length: 565 a.a.        Molecular weight: 62646.74 Da        Isoelectric Point: 5.9251

>NTDB_id=674661 L9B60_RS16000 WP_249671621.1 3487867..3489564(-) (pilB) [Pseudomonas abieticivorans strain PIA16]
MNDIALTGLAKHLVQAELLTDKSAQQAYQQAQRNRVPLVHFLVQAKLVKSREIAEVASEQFGVAFMDLSTLDKESQPKGL
VSEKLIRQHHALPLWRRGNKLFVGVSDPTNHQAITDIQFSTGLTTEAILVEDDKLMDAIDKFFDNGSTGLEEMADVDLDG
LDVQVVDDGKDEPVGQESDDAPVVRFVNKMLLDAIRGGASDLHFEPYEKIYRVRVRTDGILREVAKPPINLAGRIAARLK
VMASLDISERRKPQDGRIKMRISKNKAIDFRVNTLPTLWGEKIVMRILDPSSAQIGIDALGYEAEQKELYLQALRQPQGM
ILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPKQGLDFAQALRSFLRQDPDVIMVGEIRDLE
TAEIAIKAAQTGHLVLSTLHTNSAAETLTRLQNMGVAGFNIATSVNLIIAQRLARKLCTHCKKEIQIPRETLIKEGFPET
RIGTFKVYEPVGCDQCNGGYKGRQGIYEVVKNTQALQRLIMEEGNSIDIARQMRKEGFNDLRTSGLDKVMQGVTSLEEVN
RVTKD

Nucleotide


Download         Length: 1698 bp        

>NTDB_id=674661 L9B60_RS16000 WP_249671621.1 3487867..3489564(-) (pilB) [Pseudomonas abieticivorans strain PIA16]
ATGAACGATATCGCCCTCACTGGTTTGGCCAAGCATTTGGTCCAAGCCGAACTGCTCACTGACAAAAGCGCGCAACAGGC
GTATCAGCAAGCCCAACGCAACCGAGTGCCGCTGGTACATTTCCTGGTACAAGCCAAGCTGGTGAAGAGCCGCGAAATCG
CCGAGGTTGCCTCCGAGCAATTCGGAGTGGCCTTCATGGACCTCAGCACTTTGGACAAGGAAAGCCAGCCAAAAGGACTG
GTCAGCGAGAAGCTCATTCGCCAGCACCACGCCCTACCTTTGTGGCGGCGCGGTAACAAACTCTTTGTGGGTGTATCCGA
CCCCACTAACCATCAGGCGATCACCGATATTCAGTTCAGCACCGGCCTGACCACTGAAGCCATCCTTGTCGAAGACGACA
AGCTGATGGACGCCATCGATAAATTTTTTGATAACGGCAGCACCGGCCTTGAAGAAATGGCCGATGTAGATCTGGACGGA
CTCGACGTTCAAGTAGTGGACGACGGCAAAGATGAGCCAGTAGGCCAGGAGTCGGATGACGCGCCGGTGGTACGTTTCGT
CAATAAGATGCTGCTTGACGCGATTCGAGGCGGCGCATCGGACTTGCATTTTGAACCCTACGAAAAGATCTACCGGGTGC
GCGTCCGTACCGACGGCATCCTACGCGAAGTGGCCAAGCCTCCAATCAACCTGGCGGGCCGTATCGCCGCTCGCCTGAAG
GTCATGGCCAGCCTGGACATCTCCGAACGGCGCAAGCCACAGGATGGCCGAATCAAAATGCGCATCTCGAAGAACAAGGC
GATCGACTTCCGAGTCAATACCTTGCCCACCCTATGGGGCGAGAAGATAGTGATGCGGATCCTCGACCCTTCCAGCGCCC
AGATTGGCATTGATGCGCTGGGTTACGAAGCAGAACAAAAAGAACTCTACTTGCAGGCACTCCGCCAACCACAGGGCATG
ATTTTGGTCACCGGCCCTACCGGCTCCGGTAAAACCGTATCGCTCTACACCGGCCTAAATATTCTCAATACCGTGGATAT
CAACATTTCCACCGCCGAAGACCCGGTGGAGATCAACATGGAAGGTATCAATCAGGTCAACGTCAACCCCAAGCAAGGAC
TGGACTTCGCCCAGGCACTGCGCTCGTTCCTGCGTCAGGATCCGGACGTGATCATGGTGGGTGAGATACGCGACCTGGAA
ACTGCGGAAATTGCGATCAAGGCCGCACAGACCGGCCACTTAGTGCTGTCGACGCTTCACACTAATAGCGCTGCGGAAAC
ACTGACTCGCTTGCAGAACATGGGGGTAGCCGGTTTCAATATCGCGACCTCGGTCAACTTGATCATCGCCCAACGGCTCG
CACGCAAACTCTGCACCCACTGCAAGAAAGAGATTCAGATCCCTCGCGAAACGCTTATAAAAGAGGGGTTCCCTGAAACC
CGCATCGGCACCTTCAAGGTCTACGAACCGGTTGGTTGCGACCAATGCAATGGCGGTTACAAAGGCCGCCAAGGGATTTA
CGAAGTGGTCAAAAACACCCAGGCACTGCAGCGCCTGATCATGGAGGAAGGTAATTCCATTGATATCGCCCGCCAAATGC
GCAAGGAAGGCTTCAATGACCTGCGTACCTCCGGGCTGGACAAGGTCATGCAAGGTGTCACCAGCCTTGAGGAAGTCAAC
CGGGTTACCAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(189-456)

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

(42-146)


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 baumannii D1279779

58.834

100

0.589
  pilB Acinetobacter baylyi ADP1

57.829

99.469

0.575
  pilB Legionella pneumophila strain ERS1305867

55.929

100

0.559
  pilB Vibrio cholerae strain A1552

52.228

99.292

0.519
  pilB Vibrio parahaemolyticus RIMD 2210633

51.504

100

0.515
  pilB Vibrio campbellii strain DS40M4

51.06

100

0.512
  pilF Neisseria gonorrhoeae MS11

50

99.469

0.497
  pilF Thermus thermophilus HB27

37.343

98.584

0.368