Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   QN245_RS05555 Genome accession   NZ_CP126170
Coordinates   1328321..1330051 (+) Length   576 a.a.
NCBI ID   WP_317844764.1    Uniprot ID   -
Organism   Xanthomonas rydalmerensis strain DAR34855     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1323321..1335051
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QN245_RS05535 (QN245_05540) coaE 1324591..1325214 (-) 624 WP_317844762.1 dephospho-CoA kinase -
  QN245_RS05540 (QN245_05545) - 1325228..1326091 (-) 864 WP_317844763.1 A24 family peptidase -
  QN245_RS05545 (QN245_05550) pilC 1326098..1327357 (-) 1260 WP_184447443.1 type II secretion system F family protein Machinery gene
  QN245_RS05550 (QN245_05555) - 1327718..1328125 (+) 408 WP_184447007.1 pilin -
  QN245_RS05555 (QN245_05560) pilB 1328321..1330051 (+) 1731 WP_317844764.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QN245_RS05560 (QN245_05565) pilR 1330282..1331670 (-) 1389 WP_160967705.1 sigma-54 dependent transcriptional regulator Regulator
  QN245_RS05565 (QN245_05570) - 1331746..1333365 (-) 1620 WP_317844765.1 ATP-binding protein -
  QN245_RS05570 (QN245_05575) sucC 1333767..1334936 (+) 1170 WP_160967709.1 ADP-forming succinate--CoA ligase subunit beta -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62634.90 Da        Isoelectric Point: 5.6445

>NTDB_id=837033 QN245_RS05555 WP_317844764.1 1328321..1330051(+) (pilB) [Xanthomonas rydalmerensis strain DAR34855]
MNAMTSNLVGITGIARRLVQDGALEEAAARTAMAQAAEAKVPLPQWFSEKKLVTAAQLAAANAVEFGMPLMDVSVFDASQ
NAMKLVSEELLQKYQVLPLFKRGSRLFVGISNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDSLGSALGD
DEGMDNLDVGGGDEDMGSGGDTGIDAKGEDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVAKAPVK
LNQRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKNKQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPEQQKLF
LDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDDTRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDI
IMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRPVQLPEK
ALLAEGFTEAEIAAGVQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIASAAQKIGVKDLRQSALLKA
RNGITSLAEINRVTKD

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=837033 QN245_RS05555 WP_317844764.1 1328321..1330051(+) (pilB) [Xanthomonas rydalmerensis strain DAR34855]
ATGAACGCAATGACGAGCAACCTTGTCGGCATCACCGGCATCGCCCGCCGCCTCGTGCAGGACGGTGCGCTGGAGGAAGC
CGCGGCGCGGACCGCCATGGCCCAGGCGGCCGAGGCCAAGGTGCCGCTGCCGCAGTGGTTCTCCGAGAAGAAGCTGGTCA
CCGCCGCGCAGTTGGCCGCCGCGAACGCGGTCGAGTTTGGCATGCCGTTGATGGATGTCTCGGTCTTCGACGCCAGCCAG
AATGCGATGAAGCTGGTCAGCGAGGAACTGCTGCAGAAGTACCAGGTGCTGCCGTTGTTCAAGCGCGGCAGCCGCCTGTT
CGTCGGCATCAGCAACCCGACCCAGACCCGGGCGCTGGACGACATCAAGTTCCACACCAATCTGACGGTGGAGCCGATCC
TGGTCGACGAGGACCAGATCCGCCGGACCCTGGAGCAGTGGCAGGCCAGCAACGACTCGCTCGGCAGCGCCTTGGGCGAC
GACGAGGGCATGGACAACCTCGATGTCGGCGGCGGCGACGAGGACATGGGCAGCGGTGGCGATACCGGCATCGACGCCAA
GGGTGAGGACACCCCCGTCGTCAAATTCGTGAACAAGGTGCTGGTCGATGCGATCCGCCGTGGTGCGTCCGACATCCACT
TCGAGCCCTACGAGGACGACTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAAGGCGCCGGTCAAG
CTCAACCAGCGCATCGCCGCGCGCCTGAAGGTGATGGCGCAGCTGGACATCGCCGAGAAGCGGGTCCCGCAGGACGGCCG
CATCAAGCTCAACCTGTCCAAGAACAAGCAGATCGACTTCCGCGTCAGCACCCTGCCGACGCTGTTCGGCGAGAAGATAG
TGCTGCGTATCCTCGATGGCAGCGCGGCCAAGCTAGGCATCGACAAACTCGGCTACGAGCCGGAGCAGCAGAAGCTGTTC
CTGGATGCGATCCACAAGCCGTATGGCATGGTCCTGGTCACCGGCCCCACCGGCTCGGGCAAGACGGTGTCGCTGTACAC
CGCGCTGGGCATCCTCAACGACGACACCCGCAACATCTCCACCGCCGAGGACCCGGTCGAAATCCGCCTGCCCGGGGTCA
ACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCGGCGCTGCGCTCGTTCCTGCGCCAGGATCCGGACATC
ATCATGGTCGGCGAAATCCGCGACCTGGAGACCGCCGAGATCGCGATCAAGGCCGCGCAGACCGGTCACATGGTGCTGTC
CACCCTCCACACCAACGACGCGCCGCAGACCATCGCGCGCCTGATGAACATGGGCATCGCGCCCTACAACATCACCAGTT
CCGTGACCCTGGTCATCGCCCAGCGCCTGGCGCGGCGCCTGTGCAACAACTGCAAGCGCCCGGTCCAGTTGCCGGAGAAG
GCCTTGCTCGCCGAGGGCTTCACCGAGGCGGAGATCGCCGCCGGCGTCCAGCTGTACGAGGCGGTCGGCTGCGACGAGTG
CACCGAGGGCTACAAGGGCCGCACCGGTATCTATCAGGTGATGCCGATGAACGACGAGATCGCCGCGATCGTGCTGCAGG
GCGGCAACGCCATGGACATCGCCAGCGCCGCGCAGAAGATCGGGGTCAAGGACCTGCGCCAGTCGGCCCTGCTCAAGGCC
CGCAACGGCATCACCAGCCTGGCCGAGATCAATCGGGTGACGAAGGACTGA

Domains

Predicted by InterproScan.

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

(49-152)

Type II/IV secretion system protein (T2SSE)

(199-466)


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

55.203

98.438

0.543
  pilB Acinetobacter baumannii D1279779

54.912

98.958

0.543
  pilB Legionella pneumophila strain ERS1305867

51.142

98.785

0.505
  pilB Vibrio cholerae strain A1552

49.74

100

0.498
  pilF Neisseria gonorrhoeae MS11

49.296

98.611

0.486
  pilB Vibrio parahaemolyticus RIMD 2210633

45.719

100

0.464
  pilB Vibrio campbellii strain DS40M4

45.87

98.785

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

36.393

100

0.385
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.037

100

0.382
  pilF Thermus thermophilus HB27

40.27

90.104

0.363