Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABNK63_RS04395 Genome accession   NZ_CP157948
Coordinates   1008816..1010540 (-) Length   574 a.a.
NCBI ID   WP_350016799.1    Uniprot ID   -
Organism   Rhodanobacter sp. IGA1.0     
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 1006953..1031066 1008816..1010540 within 0


Gene organization within MGE regions


Location: 1006953..1031066
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABNK63_RS04385 (ABNK63_04380) - 1006953..1007345 (-) 393 WP_007809537.1 endonuclease domain-containing protein -
  ABNK63_RS04390 (ABNK63_04385) pilC 1007402..1008673 (-) 1272 WP_007809536.1 type II secretion system F family protein Machinery gene
  ABNK63_RS04395 (ABNK63_04390) pilB 1008816..1010540 (-) 1725 WP_350016799.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABNK63_RS04400 (ABNK63_04395) - 1010888..1011130 (+) 243 WP_007809534.1 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
  ABNK63_RS04405 (ABNK63_04400) - 1011127..1011522 (+) 396 WP_007809533.1 type II toxin-antitoxin system VapC family toxin -
  ABNK63_RS04410 (ABNK63_04405) - 1011854..1012708 (+) 855 WP_350016800.1 glycosyltransferase family 2 protein -
  ABNK63_RS04415 (ABNK63_04410) - 1012701..1013927 (+) 1227 WP_350016801.1 glycosyltransferase -
  ABNK63_RS04420 (ABNK63_04415) - 1014119..1014817 (+) 699 WP_350016802.1 class I SAM-dependent methyltransferase -
  ABNK63_RS04425 (ABNK63_04420) - 1014954..1015883 (-) 930 WP_350016803.1 glycosyltransferase -
  ABNK63_RS04430 (ABNK63_04425) - 1015889..1017034 (-) 1146 WP_350016804.1 glycosyltransferase family 4 protein -
  ABNK63_RS04435 (ABNK63_04430) asnB 1017034..1018971 (-) 1938 WP_350016805.1 asparagine synthase (glutamine-hydrolyzing) -
  ABNK63_RS04440 (ABNK63_04435) - 1018974..1020071 (-) 1098 WP_350016806.1 glycosyltransferase -
  ABNK63_RS04445 (ABNK63_04440) - 1020068..1020874 (-) 807 WP_350016807.1 methyltransferase domain-containing protein -
  ABNK63_RS04450 (ABNK63_04445) - 1020864..1022024 (-) 1161 WP_350016808.1 oligosaccharide flippase family protein -
  ABNK63_RS04455 (ABNK63_04450) - 1022311..1024419 (-) 2109 WP_350016809.1 hypothetical protein -
  ABNK63_RS04460 (ABNK63_04455) - 1024652..1026607 (-) 1956 WP_350016810.1 hypothetical protein -
  ABNK63_RS04465 (ABNK63_04460) pilA 1026708..1027133 (-) 426 WP_350016811.1 pilin Machinery gene
  ABNK63_RS04470 (ABNK63_04465) - 1027578..1028006 (-) 429 WP_350016812.1 pilin -
  ABNK63_RS04475 (ABNK63_04470) - 1028205..1030337 (+) 2133 WP_350016813.1 S9 family peptidase -
  ABNK63_RS04480 (ABNK63_04475) - 1030776..1031066 (+) 291 WP_350016814.1 nucleotidyltransferase domain-containing protein -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 62578.18 Da        Isoelectric Point: 5.9098

>NTDB_id=1009311 ABNK63_RS04395 WP_350016799.1 1008816..1010540(-) (pilB) [Rhodanobacter sp. IGA1.0]
MSSQLQPSLTGLSGMARRLVSEGVMAEDVVRKAMADSGQQKAALGTWLLDHGLVDSSELTRVASVEFGMPMMDVASLNPA
TMPLDLISEALITKHQALPLFRRGKRLYVGIADPMQSHALDEIKFHSNCMVEPILVERNSLQKVIESLLNNLRNTMPDMG
GGDLDELDIEAGDGENESSSGVDATGNDDAPVVKFVNKVLVDAIRRGASDIHFEPFETQYRVRVRMDGILSTVANPPMKM
ANRISSRIKVMSQLDIAEKRVPQDGRIKLNLSKTRAVDFRVSVLPTLFGEKIVMRILDGSSAKIGIEKLGYEPDQQKLYI
DAIHKPYGLVLVTGPTGSGKTVSLYTGLNMLNTPERNISTVEDPVEIRVEGINQVQQNVKRGMTFASALRSFLRQDPDVI
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAAQTVSRLMNMGIAPYNITSSVTLIIAQRLARRLHDCKKPMDLPPQVL
LAAGFSQADIDEGMTIYEAGGCDGCNDGYKGRVGIYQVMPMLEEIQKIILQGGNTMEIAAAAKAAGVNDLRASALLKVKQ
GLTSLIEIDRVTKE

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=1009311 ABNK63_RS04395 WP_350016799.1 1008816..1010540(-) (pilB) [Rhodanobacter sp. IGA1.0]
ATGTCATCTCAATTGCAACCGTCGCTTACGGGTCTGTCCGGCATGGCGCGCCGGCTGGTGTCCGAAGGCGTGATGGCGGA
GGATGTGGTTCGCAAGGCCATGGCGGACAGCGGGCAGCAGAAGGCTGCGCTGGGTACCTGGTTGCTGGATCACGGCTTGG
TCGACAGTTCGGAACTGACGCGGGTGGCGTCGGTGGAATTCGGCATGCCGATGATGGACGTGGCTTCGCTGAACCCGGCC
ACGATGCCGCTGGACCTGATCAGCGAGGCGCTGATCACCAAGCACCAGGCGCTGCCGCTGTTCCGGCGGGGCAAGCGCCT
GTACGTGGGCATCGCCGACCCGATGCAGTCGCACGCGCTGGACGAGATCAAGTTCCACTCCAACTGCATGGTCGAGCCGA
TCCTGGTGGAGCGGAACTCGCTGCAGAAGGTAATCGAAAGCCTGCTGAACAACCTTCGCAACACCATGCCGGACATGGGT
GGCGGCGACCTCGACGAGCTCGATATCGAGGCTGGTGACGGCGAGAACGAATCAAGCAGCGGCGTCGATGCCACCGGCAA
CGACGATGCACCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTCGACGCGATCCGCCGGGGCGCCTCGGACATCCATTTCG
AGCCGTTCGAAACGCAGTACCGGGTGCGCGTGCGCATGGATGGCATCCTCAGCACGGTGGCCAACCCGCCGATGAAGATG
GCCAACCGCATCTCGTCGCGCATCAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGCGTGCCGCAGGACGGCCGCAT
CAAGCTCAACCTGTCCAAGACCCGCGCGGTCGACTTCCGTGTCAGCGTGCTGCCCACGCTGTTCGGCGAGAAGATCGTGA
TGCGTATCCTGGACGGCTCCTCGGCCAAGATCGGCATCGAGAAGCTGGGCTACGAGCCGGATCAGCAGAAGCTCTACATC
GACGCCATCCACAAGCCGTACGGCCTGGTGCTGGTCACCGGCCCCACCGGCTCGGGCAAGACGGTGTCGCTGTACACCGG
CCTGAACATGCTCAATACGCCCGAACGCAACATTTCCACCGTGGAAGACCCGGTGGAAATCCGCGTGGAAGGCATCAACC
AGGTGCAGCAGAACGTCAAGCGCGGCATGACCTTCGCCAGCGCGCTGCGCTCGTTCCTGCGCCAGGACCCGGACGTGATC
ATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGAAATCGCCATCAAGGCCGCGCAGACCGGTCACATGGTGCTGTCCAC
CCTGCATACCAACGACGCGGCGCAGACGGTTTCGCGCCTGATGAACATGGGCATCGCCCCGTACAACATCACCTCGTCGG
TCACCCTGATCATCGCCCAGCGCCTGGCGCGGCGCCTGCACGACTGCAAGAAGCCGATGGATCTGCCGCCGCAGGTGCTG
CTGGCCGCCGGCTTCAGCCAGGCCGATATCGACGAGGGGATGACGATCTACGAGGCCGGCGGTTGCGACGGCTGCAATGA
CGGCTACAAGGGCCGCGTGGGCATTTACCAGGTGATGCCGATGCTGGAGGAGATCCAGAAGATCATCCTGCAGGGCGGCA
ACACCATGGAGATCGCGGCAGCGGCCAAGGCTGCCGGGGTGAACGACCTGCGCGCTTCGGCCCTGCTGAAGGTGAAGCAG
GGCCTGACCAGCCTGATCGAGATCGACCGCGTGACCAAGGAATAA

Domains

Predicted by InterproScan.

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

(48-149)

Type II/IV secretion system protein (T2SSE)

(198-465)


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

53.873

98.955

0.533
  pilB Acinetobacter baylyi ADP1

53.982

98.432

0.531
  pilB Legionella pneumophila strain ERS1305867

50.704

98.955

0.502
  pilB Vibrio cholerae strain A1552

50.094

92.509

0.463
  pilB Vibrio parahaemolyticus RIMD 2210633

49.436

92.683

0.458
  pilB Vibrio campbellii strain DS40M4

49.341

92.509

0.456
  pilF Neisseria gonorrhoeae MS11

46.512

97.387

0.453
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.268

100

0.385
  pilF Thermus thermophilus HB27

37.456

100

0.375

Multiple sequence alignment