Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LRK44_RS04550 Genome accession   NZ_CP088921
Coordinates   1019899..1021623 (-) Length   574 a.a.
NCBI ID   WP_027490751.1    Uniprot ID   -
Organism   Rhodanobacter denitrificans strain FW104-R3     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1014899..1026623
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LRK44_RS04520 (LRK44_04520) - 1015408..1015896 (+) 489 WP_015447031.1 dihydrofolate reductase -
  LRK44_RS04525 (LRK44_04525) - 1015896..1016312 (+) 417 WP_027490755.1 NUDIX domain-containing protein -
  LRK44_RS04530 (LRK44_04530) coaE 1016449..1017069 (-) 621 WP_027490754.1 dephospho-CoA kinase -
  LRK44_RS04535 (LRK44_04535) pilD 1017066..1017923 (-) 858 WP_027490753.1 A24 family peptidase Machinery gene
  LRK44_RS04540 (LRK44_04540) - 1017938..1018336 (-) 399 WP_008438584.1 endonuclease domain-containing protein -
  LRK44_RS04545 (LRK44_04545) pilC 1018485..1019756 (-) 1272 WP_027490752.1 type II secretion system F family protein Machinery gene
  LRK44_RS04550 (LRK44_04550) pilB 1019899..1021623 (-) 1725 WP_027490751.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LRK44_RS04555 (LRK44_04555) - 1022257..1022499 (+) 243 WP_007513924.1 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
  LRK44_RS04560 (LRK44_04560) - 1022496..1022891 (+) 396 WP_007513922.1 type II toxin-antitoxin system VapC family toxin -
  LRK44_RS04565 (LRK44_04565) - 1023183..1024037 (+) 855 WP_027490750.1 glycosyltransferase family 2 protein -
  LRK44_RS04570 (LRK44_04570) - 1024030..1025283 (+) 1254 WP_027490749.1 glycosyltransferase family 4 protein -
  LRK44_RS04575 (LRK44_04575) - 1025280..1025576 (+) 297 WP_027490748.1 hypothetical protein -
  LRK44_RS04580 (LRK44_04580) - 1025573..1026523 (+) 951 WP_027490747.1 glycosyltransferase family 2 protein -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 62713.47 Da        Isoelectric Point: 6.3337

>NTDB_id=633970 LRK44_RS04550 WP_027490751.1 1019899..1021623(-) (pilB) [Rhodanobacter denitrificans strain FW104-R3]
MSSQLQPSLAGLSGMARRLVSEGVMPEDVVRKAMADSSQQKATLGAWLLDRSLVDSAELTRIASAEFGMPMMDVAALNPA
TMPLDLISEALITKHQALPLFRRGKRLYVGIADPMQSHALDEIKFHSNCMVEPILVERGSLQRVIETLLNNMRNTMPEMG
GGELDELDIEGGDDEGESSSGVDANANDDAPVVKFVNKILVDAIRRGASDIHFEPFETQYRVRLRMDGMLKAVANPPMKM
ANRISSRIKVMAQLDIAEKRVPQDGRIKLNLSKTRAVDFRVSTLPTLFGEKIVLRILDGSSARIGIEKLGYEPNQQKLYV
DAIHKPYGMVLVTGPTGSGKTVSLYTGLNMLNTAERNISTVEDPVEIRVEGINQVQQNVKRGMTFASALRSFLRQDPDVI
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAAQTISRLMNMGIAPYNITSSVTLIIAQRLARRLHDCKKPIELPPKVL
LDAGFTQADIDAGLTIYEAGGCDGCNEGYKGRVGIYQVMPMLEDIQKIILQGGNALQIAEVAKAAGINDLRASALLKVKQ
GLTSLTEIDRVTKE

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=633970 LRK44_RS04550 WP_027490751.1 1019899..1021623(-) (pilB) [Rhodanobacter denitrificans strain FW104-R3]
ATGTCATCTCAATTACAGCCGTCGCTTGCGGGCTTGTCCGGCATGGCCCGCCGGTTGGTCTCCGAAGGCGTGATGCCGGA
GGACGTGGTACGCAAGGCCATGGCCGACAGCAGCCAGCAGAAGGCCACGCTGGGCGCCTGGCTGCTGGACCGCAGCCTGG
TCGACAGCGCCGAACTGACCCGGATCGCCTCGGCCGAATTCGGCATGCCGATGATGGACGTGGCCGCGCTGAACCCGGCC
ACGATGCCGCTGGACCTGATCAGCGAGGCGCTGATCACCAAGCACCAGGCGCTGCCGCTGTTCCGCCGCGGCAAGCGGCT
GTACGTGGGCATCGCCGACCCGATGCAGTCGCATGCGCTGGACGAGATCAAGTTCCACTCCAACTGCATGGTGGAGCCGA
TCCTGGTGGAGCGTGGCTCGCTGCAGCGAGTGATCGAAACCCTGCTCAACAACATGCGCAACACCATGCCCGAGATGGGC
GGGGGCGAGCTGGACGAGCTGGACATCGAGGGCGGCGACGACGAGGGCGAGTCGAGCAGCGGCGTCGATGCGAACGCGAA
CGACGACGCGCCGGTGGTGAAGTTCGTCAACAAGATCCTGGTCGACGCGATCCGCCGCGGCGCCTCGGACATCCATTTCG
AGCCGTTCGAGACGCAGTACCGCGTGCGCCTGCGCATGGACGGCATGCTGAAGGCGGTGGCCAACCCGCCGATGAAGATG
GCCAACCGCATCTCCTCGCGCATCAAGGTGATGGCCCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGACGGCCGCAT
CAAGCTCAACCTGTCCAAGACCCGCGCGGTCGACTTTCGCGTGAGCACGCTGCCGACGCTGTTCGGCGAGAAGATCGTGC
TGCGCATCCTGGACGGCTCCTCGGCCAGGATCGGCATCGAGAAGCTGGGCTACGAGCCGAACCAGCAGAAGCTCTACGTC
GATGCGATCCATAAGCCGTACGGCATGGTGCTGGTCACCGGCCCCACCGGCTCGGGCAAGACGGTGTCGCTGTACACCGG
CCTGAACATGCTCAACACCGCCGAGCGCAACATCTCGACGGTGGAAGACCCGGTGGAAATCCGCGTCGAGGGCATCAACC
AGGTGCAGCAGAACGTGAAGCGCGGCATGACCTTTGCCAGCGCGCTGCGCTCGTTCCTGCGCCAGGACCCGGACGTGATC
ATGGTCGGCGAGATCCGCGACCTGGAGACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGTCACATGGTGCTGTCCAC
CCTGCACACCAACGACGCGGCGCAGACCATCTCGCGCCTGATGAACATGGGCATCGCGCCGTACAACATCACCTCGTCGG
TGACCCTGATCATCGCCCAGCGCCTGGCGCGGCGCCTGCACGACTGCAAGAAGCCGATCGAGCTGCCGCCCAAGGTGCTG
CTGGACGCCGGCTTCACCCAGGCCGACATCGACGCGGGGCTGACCATCTATGAAGCCGGCGGCTGCGACGGCTGCAACGA
GGGCTACAAGGGCCGTGTCGGCATCTACCAGGTGATGCCGATGCTGGAGGATATCCAGAAGATCATTCTGCAAGGCGGCA
ACGCGCTGCAGATCGCCGAGGTGGCCAAGGCCGCCGGCATCAACGACCTGCGCGCGTCGGCCCTGCTGAAGGTGAAGCAG
GGGCTGACCAGCCTGACCGAGATCGACCGCGTCACCAAGGAATGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(198-465)

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

(49-152)


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

55.044

98.432

0.542
  pilB Acinetobacter baumannii D1279779

53.427

99.129

0.53
  pilB Legionella pneumophila strain ERS1305867

49.562

99.477

0.493
  pilB Vibrio cholerae strain A1552

51.036

92.509

0.472
  pilB Vibrio parahaemolyticus RIMD 2210633

49.906

92.509

0.462
  pilB Vibrio campbellii strain DS40M4

49.906

92.509

0.462
  pilF Neisseria gonorrhoeae MS11

46.869

97.387

0.456
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.268

100

0.385
  pilF Thermus thermophilus HB27

38.378

96.69

0.371