Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   R2APBS1_RS04445 Genome accession   NC_020541
Coordinates   1015590..1017314 (-) Length   574 a.a.
NCBI ID   WP_015447036.1    Uniprot ID   M4NBN9
Organism   Rhodanobacter denitrificans     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1010590..1022314
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R2APBS1_RS04410 (R2APBS1_0903) - 1010917..1011405 (+) 489 WP_015447031.1 dihydrofolate reductase -
  R2APBS1_RS04415 (R2APBS1_0904) - 1011405..1011821 (+) 417 WP_027485879.1 NUDIX domain-containing protein -
  R2APBS1_RS04425 (R2APBS1_0905) coaE 1012119..1012733 (-) 615 WP_015447032.1 dephospho-CoA kinase -
  R2APBS1_RS04430 (R2APBS1_0906) pilD 1012736..1013593 (-) 858 WP_015447033.1 A24 family peptidase Machinery gene
  R2APBS1_RS04435 (R2APBS1_0907) - 1013608..1014027 (-) 420 WP_015447034.1 DUF559 domain-containing protein -
  R2APBS1_RS04440 (R2APBS1_0908) pilC 1014176..1015447 (-) 1272 WP_015447035.1 type II secretion system F family protein Machinery gene
  R2APBS1_RS04445 (R2APBS1_0909) pilB 1015590..1017314 (-) 1725 WP_015447036.1 type IV-A pilus assembly ATPase PilB Machinery gene
  R2APBS1_RS04450 (R2APBS1_0910) - 1017947..1018189 (+) 243 WP_015447037.1 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
  R2APBS1_RS04455 (R2APBS1_0911) - 1018186..1018581 (+) 396 WP_015447038.1 type II toxin-antitoxin system VapC family toxin -
  R2APBS1_RS04460 (R2APBS1_0912) - 1018872..1019726 (+) 855 WP_008438588.1 glycosyltransferase family 2 protein -
  R2APBS1_RS04465 (R2APBS1_0913) - 1019719..1020972 (+) 1254 WP_015447039.1 glycosyltransferase family 4 protein -
  R2APBS1_RS04470 (R2APBS1_0914) - 1020969..1021265 (+) 297 WP_015447040.1 hypothetical protein -
  R2APBS1_RS04475 (R2APBS1_0915) - 1021262..1022212 (+) 951 WP_015447041.1 glycosyltransferase family 2 protein -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 62774.55 Da        Isoelectric Point: 6.3329

>NTDB_id=57131 R2APBS1_RS04445 WP_015447036.1 1015590..1017314(-) (pilB) [Rhodanobacter denitrificans]
MSSQLQPSLAGLSGMARRLVSEGVMPEDVVRKAMVDSSQQKATLGAWLLDRSLVDSAELTRIASAEFGMPMMDVATLNPA
TMPLDLISEALITKHQALPLFRRGKRLYVGIADPMQSHALDEIKFHSNCMVEPILVERGSLQRVIESLLNNMRNTMPDMG
GGDLDELDIEGGDDEGESSSGVDANANDDAPVVKFVNKILVDAIRRGASDIHFEPFETQYRVRLRMDGMLKAVASPPMKM
ANRISSRIKVMAQLDIAEKRVPQDGRIKLNLSKTRAVDFRVSTLPTLFGEKIVLRILDGSSARIGIEKLGYEPNQQKLYV
DAIHKPYGMVLVTGPTGSGKTVSLYTGLNMLNTAERNISTVEDPVEIRVEGINQVQQNVKRGMTFASALRSFLRQDPDVI
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAAQTISRLMNMGIAPYNITSSVTLIIAQRLARRLHDCKKPIELPPKVL
LDAGFTQADIDAGLTIYEAVGCDSCNEGYKGRVGIYQVMPMLEDIQKIILQGGNALQIAEVAKAAGINDLRASALLKVKQ
GLTSLTEIDRVTKE

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=57131 R2APBS1_RS04445 WP_015447036.1 1015590..1017314(-) (pilB) [Rhodanobacter denitrificans]
ATGTCATCTCAATTACAGCCGTCGCTCGCGGGCTTGTCCGGCATGGCCCGCCGGTTGGTATCTGAAGGGGTAATGCCCGA
GGACGTGGTCCGCAAGGCCATGGTCGACAGCAGCCAGCAGAAGGCCACGCTGGGCGCCTGGCTGCTGGACCGCAGCCTGG
TCGACAGCGCCGAGCTGACCCGGATCGCCTCGGCCGAATTCGGCATGCCGATGATGGACGTGGCCACGCTGAACCCGGCC
ACGATGCCGCTGGACCTGATCAGCGAGGCGCTGATCACCAAGCACCAGGCGCTGCCGCTGTTCCGCCGCGGCAAGCGGCT
GTACGTGGGCATCGCCGACCCGATGCAGTCGCATGCGCTGGACGAGATCAAGTTCCACTCCAACTGCATGGTGGAGCCGA
TCCTGGTGGAGCGTGGCTCGCTGCAGCGGGTGATCGAGAGCCTGCTCAACAACATGCGCAACACCATGCCCGACATGGGC
GGCGGCGACCTCGACGAGCTGGACATCGAGGGCGGCGACGACGAGGGCGAGTCGAGCAGCGGCGTCGACGCGAATGCGAA
CGACGACGCGCCGGTGGTGAAGTTCGTCAACAAGATCCTGGTCGACGCGATCCGCCGCGGCGCCTCGGACATCCATTTCG
AGCCGTTCGAGACGCAGTACCGCGTGCGCCTGCGCATGGACGGCATGCTGAAGGCGGTGGCCAGCCCGCCGATGAAGATG
GCCAACCGCATCTCCTCGCGCATCAAGGTGATGGCCCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGATGGCCGCAT
CAAGCTCAACCTGTCCAAGACCCGCGCGGTCGACTTCCGCGTGAGCACGCTGCCGACGCTGTTCGGCGAGAAGATCGTGC
TGCGCATCCTGGACGGCTCCTCGGCCCGCATCGGCATCGAGAAGCTGGGCTACGAGCCGAACCAGCAGAAGCTCTACGTC
GATGCGATCCACAAGCCGTACGGCATGGTGCTGGTCACCGGCCCCACCGGCTCGGGTAAGACGGTGTCGCTGTACACCGG
CCTGAACATGCTCAACACCGCCGAGCGCAACATCTCGACGGTGGAAGACCCGGTGGAAATCCGTGTCGAGGGCATCAACC
AGGTGCAGCAGAACGTGAAGCGCGGCATGACCTTTGCCAGCGCGCTGCGCTCGTTCCTGCGCCAGGACCCGGACGTGATC
ATGGTCGGCGAGATCCGCGACTTGGAGACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGTCACATGGTGCTGTCCAC
CCTGCACACCAACGACGCGGCGCAGACCATCTCGCGCCTGATGAACATGGGCATCGCGCCGTACAACATCACCTCGTCGG
TGACCCTGATCATCGCCCAGCGCCTGGCGCGGCGCCTGCACGACTGCAAGAAGCCGATCGAGCTGCCGCCCAAGGTGCTG
CTGGACGCCGGCTTCACCCAGGCCGACATCGACGCGGGGCTGACCATCTACGAGGCCGTCGGCTGCGACAGCTGCAACGA
GGGTTACAAGGGTCGCGTGGGTATCTATCAGGTAATGCCGATGCTGGAGGATATCCAGAAGATCATCCTGCAAGGTGGCA
ATGCACTGCAGATCGCCGAGGTGGCCAAGGCCGCCGGCATCAACGACCTGCGCGCGTCGGCCCTGCTGAAGGTGAAGCAG
GGGCTGACCAGCCTGACCGAGATCGACCGCGTCACCAAGGAATGA

Domains

Predicted by InterproScan.

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

(49-152)

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
  AlphaFold DB M4NBN9

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

55.044

98.432

0.542
  pilB Acinetobacter baumannii D1279779

53.427

99.129

0.53
  pilB Legionella pneumophila strain ERS1305867

49.824

98.955

0.493
  pilB Vibrio cholerae strain A1552

50.659

92.509

0.469
  pilB Vibrio parahaemolyticus RIMD 2210633

49.529

92.509

0.458
  pilB Vibrio campbellii strain DS40M4

49.529

92.509

0.458
  pilF Neisseria gonorrhoeae MS11

47.048

97.387

0.458
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.605

100

0.388
  pilF Thermus thermophilus HB27

38.198

96.69

0.369

Multiple sequence alignment