Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KFS84_RS15385 Genome accession   NZ_CP076254
Coordinates   3450111..3451847 (-) Length   578 a.a.
NCBI ID   WP_009580420.1    Uniprot ID   A0A1M4J5J2
Organism   Xanthomonas translucens pv. graminis strain LMG 726     
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 3449491..3470766 3450111..3451847 within 0


Gene organization within MGE regions


Location: 3449491..3470766
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KFS84_RS15375 (KFS84_15315) - 3449491..3449787 (+) 297 WP_009580424.1 type II toxin-antitoxin system RelE/ParE family toxin -
  KFS84_RS15380 (KFS84_15320) - 3449790..3450083 (+) 294 WP_009580422.1 addiction module antidote protein -
  KFS84_RS15385 (KFS84_15325) pilB 3450111..3451847 (-) 1737 WP_009580420.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KFS84_RS15390 (KFS84_15330) - 3452054..3452344 (+) 291 WP_009580418.1 nucleotidyltransferase family protein -
  KFS84_RS15395 (KFS84_15335) - 3452341..3452661 (+) 321 WP_009580416.1 DUF86 domain-containing protein -
  KFS84_RS15400 - 3452761..3453012 (+) 252 WP_009580414.1 transposase -
  KFS84_RS15405 - 3453013..3453318 (+) 306 WP_231103532.1 hypothetical protein -
  KFS84_RS15410 (KFS84_15345) - 3453716..3453961 (-) 246 WP_237654532.1 hypothetical protein -
  KFS84_RS15415 (KFS84_15350) - 3454022..3454978 (+) 957 WP_009597007.1 IS30 family transposase -
  KFS84_RS15420 (KFS84_15355) pilA/pilAI 3455037..3455447 (-) 411 WP_039955568.1 pilin Machinery gene
  KFS84_RS15425 (KFS84_15360) pilC 3455834..3457093 (+) 1260 WP_009580410.1 type II secretion system F family protein Machinery gene
  KFS84_RS15430 (KFS84_15365) - 3457100..3457963 (+) 864 WP_009580408.1 prepilin peptidase -
  KFS84_RS15435 (KFS84_15370) coaE 3457977..3458597 (+) 621 WP_009580406.1 dephospho-CoA kinase -
  KFS84_RS15440 (KFS84_15375) - 3458720..3460054 (-) 1335 WP_009580404.1 sensor histidine kinase -
  KFS84_RS15445 (KFS84_15380) - 3460047..3460724 (-) 678 WP_003466405.1 response regulator transcription factor -
  KFS84_RS15450 - 3460823..3461017 (-) 195 WP_231103461.1 hypothetical protein -
  KFS84_RS15455 (KFS84_15390) rimK 3461457..3462350 (-) 894 WP_009580399.1 30S ribosomal protein S6--L-glutamate ligase -
  KFS84_RS15460 (KFS84_15395) - 3462649..3464946 (+) 2298 WP_009580397.1 TonB-dependent receptor family protein -
  KFS84_RS15470 (KFS84_15405) - 3465924..3466687 (+) 764 WP_100225433.1 IS5 family transposase -
  KFS84_RS15475 (KFS84_15410) - 3466697..3467430 (+) 734 WP_237654616.1 IS5 family transposase -
  KFS84_RS15485 (KFS84_15420) - 3468940..3469821 (-) 882 WP_160317294.1 DUF4760 domain-containing protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62918.20 Da        Isoelectric Point: 6.1466

>NTDB_id=574086 KFS84_RS15385 WP_009580420.1 3450111..3451847(-) (pilB) [Xanthomonas translucens pv. graminis strain LMG 726]
MNAVTSANLVGITGIARRLVQDGALEETAARTAMAHAAEAKIPLPQWFSDKKLVTAAQLAAANALEFGMPLLDVSVFDAS
QSAMKLVSEELLHKYQVLPLFKRGNRLFVGMSNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDAIGDALG
DDDEAMGRLEVGAGDEDMGSGGDTGVDAKGDDTPVVKFVNKMLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVARAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRVLDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAVALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRPTQLP
HNALLAEGFSEAEVAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIAQAAQKIGVKDLRQSALL
KARAGITSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=574086 KFS84_RS15385 WP_009580420.1 3450111..3451847(-) (pilB) [Xanthomonas translucens pv. graminis strain LMG 726]
ATGAACGCTGTGACATCCGCCAATCTCGTCGGCATCACCGGCATCGCGCGCCGCCTGGTTCAGGATGGCGCGCTCGAGGA
AACGGCTGCGCGGACCGCGATGGCGCATGCCGCCGAGGCCAAGATCCCGCTGCCGCAGTGGTTCTCGGACAAGAAGCTGG
TCACCGCGGCGCAGCTGGCCGCCGCCAATGCGCTGGAGTTCGGGATGCCGTTGCTGGACGTGTCGGTGTTCGATGCCAGC
CAGAGCGCGATGAAGCTGGTCAGCGAGGAGCTGTTGCACAAGTACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGCCT
GTTCGTCGGGATGAGCAATCCGACCCAGACCCGGGCGCTGGACGACATCAAGTTCCATACCAATTTGACGGTCGAGCCGA
TCCTGGTCGATGAGGACCAGATCCGCCGCACCCTGGAACAGTGGCAGGCGAGCAACGATGCGATCGGCGACGCGCTGGGC
GACGACGACGAGGCCATGGGCAGGCTCGAGGTCGGTGCCGGCGACGAGGACATGGGCAGTGGCGGCGATACCGGCGTCGA
TGCCAAGGGCGACGATACGCCCGTGGTCAAGTTCGTGAACAAGATGCTGGTCGATGCGATCCGCCGCGGCGCGTCGGACA
TCCATTTCGAGCCGTACGAGGACGATTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAGGGCGCCG
GTCAAGCTCAACCAGCGCATTGCCGCGCGGCTCAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGA
CGGACGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGATTTCCGCGTCAGCACGCTGCCGACCTTGTTCGGCGAGA
AGATCGTGCTGCGTGTCCTCGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGCTACGAGCCGGAGCAGCAGAAG
CTGTTCCTGGATGCGATCCACAAGCCGTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTACACCGCGCTGGGCATCCTCAACGACGAGACCCGCAACATCTCCACCGCCGAGGATCCGGTGGAAATCCGCCTGCCCG
GGGTCAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGTGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAGATCCGTGACCTGGAAACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GCTGTCCACACTGCACACCAACGATGCGCCGCAGACCATCGCGCGGCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCAGTTCGGTGACGCTGGTGATCGCGCAGCGCCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCCCGACCCAGCTGCCG
CACAATGCGCTGCTGGCCGAGGGCTTCAGCGAGGCGGAAGTGGCTGCCGGCATCCAGCTGTACGAGGCGGTGGGCTGCGA
CGAGTGCACCGAGGGCTACAAGGGCCGTACCGGCATCTATCAGGTGATGCCGATGAACGACGAGATTGCGGCGATCGTAT
TGCAGGGCGGCAACGCGATGGACATCGCCCAGGCCGCGCAGAAGATCGGGGTCAAGGATCTGCGCCAGTCGGCGCTGCTC
AAGGCACGCGCCGGCATCACCAGCCTGGCGGAGATCAATCGCGTGACCAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(51-152)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A1M4J5J2

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

54.93

98.27

0.54
  pilB Acinetobacter baumannii D1279779

53.927

99.135

0.535
  pilB Legionella pneumophila strain ERS1305867

52.373

98.443

0.516
  pilB Vibrio cholerae strain A1552

49.047

99.827

0.49
  pilF Neisseria gonorrhoeae MS11

48.592

98.27

0.478
  pilB Vibrio parahaemolyticus RIMD 2210633

46.82

97.924

0.458
  pilB Vibrio campbellii strain DS40M4

45.518

98.443

0.448
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.421

90.311

0.365
  pilF Thermus thermophilus HB27

40.385

89.965

0.363