Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RA876_RS14485 Genome accession   NZ_CP019240
Coordinates   3003316..3005049 (+) Length   577 a.a.
NCBI ID   WP_075584755.1    Uniprot ID   A0A1Q8YKJ2
Organism   Rhodoferax antarcticus strain DSMZ24876     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2998316..3010049
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RA876_RS14465 (RA876_14465) rsmD 2998537..2999157 (-) 621 WP_241838930.1 16S rRNA (guanine(966)-N(2))-methyltransferase RsmD -
  RA876_RS14470 (RA876_14470) - 2999210..3000586 (-) 1377 WP_075584752.1 pitrilysin family protein -
  RA876_RS14475 (RA876_14475) - 3000607..3002076 (-) 1470 WP_083633696.1 pitrilysin family protein -
  RA876_RS14480 (RA876_14480) ftsY 3002106..3003227 (+) 1122 WP_075584754.1 signal recognition particle-docking protein FtsY -
  RA876_RS14485 (RA876_14485) pilB 3003316..3005049 (+) 1734 WP_075584755.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RA876_RS14490 (RA876_14490) pilC 3005070..3006296 (+) 1227 WP_075584756.1 type II secretion system F family protein Machinery gene
  RA876_RS14495 (RA876_14495) - 3006361..3006672 (-) 312 WP_075584757.1 DUF883 family protein -
  RA876_RS14500 (RA876_14500) - 3006902..3007759 (+) 858 WP_075584758.1 A24 family peptidase -
  RA876_RS14505 (RA876_14505) coaE 3007763..3008407 (+) 645 WP_075584759.1 dephospho-CoA kinase -
  RA876_RS14510 (RA876_14510) zapD 3008404..3009159 (+) 756 WP_075584760.1 cell division protein ZapD -
  RA876_RS14515 (RA876_14515) - 3009170..3009385 (+) 216 WP_075584761.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 63302.14 Da        Isoelectric Point: 6.2126

>NTDB_id=214354 RA876_RS14485 WP_075584755.1 3003316..3005049(+) (pilB) [Rhodoferax antarcticus strain DSMZ24876]
MAITETMPLSMPASTLPGLGRTLVMAGKLDLKFAEDIFRKAQAKRSSFIAELTGSGAVSATDLAQTLSLAFAVPIIDLDA
INPQLLPHGLLDNKICQDFRLVVLGKRQNRLIVATADPSDQQAAEKIKFSTRQSVDWVVAEYDKLLKLVSSNTLSASETI
DNIIGENFEFDDLVTEQVNDSAVAASSEVDDAPVVKFLHKMMLDAFSMRASDLHFEPYEHNYRVRFRIDGELREIASPPI
AIKDKLASRIKVISKMDISEKRVPQDGKMKLKIGPDRVIDFRISTLPTLFGEKVVIRILDPSTAKMGIEALGYEPEEKER
LMQAISRPYGMILVTGPTGSGKTVSLYTCLNLLNKPGVNIATVEDPSEINLPGVNQVNVNEKAGLTFAAALKSFLRQDPD
IIMVGEIRDLETADIAIKAAQTGHLVLSTLHTNDAPSTLTRMRNMGIAPFNIASSVLLISAQRLARRLCPTCKKAIEIPD
KALLEAGFKPEDLDGSWKPYHPVGCNACNNGYKGRVGLYQVMPISEDIQRIILRDGSTLEIAEQAKREGVKTMRESGLYK
VKQGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=214354 RA876_RS14485 WP_075584755.1 3003316..3005049(+) (pilB) [Rhodoferax antarcticus strain DSMZ24876]
ATGGCCATCACCGAAACAATGCCGCTCAGCATGCCTGCCAGCACCTTGCCGGGTCTGGGGCGCACGCTGGTCATGGCGGG
CAAGCTTGATCTGAAGTTTGCCGAAGACATTTTCCGCAAGGCGCAAGCCAAGCGGTCGAGCTTCATTGCCGAGCTCACCG
GCTCGGGCGCGGTTTCGGCCACCGACTTGGCGCAGACACTGTCGCTGGCGTTTGCGGTGCCGATCATCGACCTGGACGCG
ATCAACCCGCAACTGTTACCGCATGGTTTGCTGGACAACAAAATTTGTCAGGACTTTCGACTGGTGGTGCTGGGCAAGCG
GCAAAACCGGCTAATCGTGGCCACCGCCGACCCGTCTGACCAGCAAGCTGCTGAAAAAATCAAATTTTCCACCCGTCAAA
GTGTCGACTGGGTGGTGGCTGAGTACGACAAGCTGCTCAAGCTGGTGTCCAGCAACACGCTGAGTGCCTCGGAAACCATC
GACAACATCATTGGTGAGAATTTCGAATTTGACGACCTGGTGACCGAGCAGGTCAACGACAGTGCGGTTGCCGCATCTTC
TGAAGTAGACGATGCGCCAGTGGTCAAGTTTTTGCACAAGATGATGCTCGACGCGTTTTCCATGCGCGCCTCGGACTTGC
ACTTTGAGCCCTATGAGCACAACTACCGGGTGCGCTTTCGCATTGACGGCGAGCTGCGCGAGATTGCCTCGCCGCCGATT
GCCATCAAGGACAAGCTGGCCTCGCGCATCAAGGTGATCTCAAAGATGGACATCTCCGAGAAACGTGTGCCGCAAGACGG
CAAGATGAAGCTCAAGATCGGGCCAGACCGCGTCATCGACTTCCGGATCAGCACCTTGCCAACTCTGTTTGGCGAAAAAG
TCGTGATCCGGATTCTGGACCCCAGCACCGCCAAGATGGGCATTGAAGCGCTGGGCTACGAGCCAGAAGAAAAAGAGCGG
CTGATGCAGGCCATCAGCCGCCCCTACGGCATGATTCTGGTGACCGGCCCGACTGGCTCGGGCAAAACCGTGTCGCTGTA
CACCTGCCTGAACCTGCTGAATAAGCCTGGTGTCAACATTGCCACAGTGGAAGACCCGTCTGAAATCAACCTGCCGGGCG
TGAACCAGGTGAATGTCAACGAGAAGGCCGGGCTGACCTTTGCGGCAGCGCTCAAGTCGTTTCTGCGGCAAGACCCCGAC
ATCATCATGGTCGGCGAAATTCGCGACCTGGAAACAGCCGATATTGCCATCAAGGCGGCGCAAACCGGTCACCTGGTGCT
ATCAACATTGCACACCAACGATGCGCCCTCCACGCTCACGCGGATGCGCAATATGGGTATTGCGCCGTTCAACATTGCGT
CGAGCGTGTTGCTGATTTCTGCCCAGCGTCTGGCGCGCAGGCTGTGCCCCACCTGCAAAAAAGCCATTGAGATCCCGGAC
AAGGCTCTGCTGGAGGCGGGTTTCAAGCCGGAAGACCTCGACGGCAGCTGGAAGCCTTACCACCCGGTGGGCTGCAACGC
CTGCAACAATGGCTACAAAGGCCGGGTTGGCCTGTACCAGGTGATGCCAATCAGCGAGGACATCCAGCGCATCATCCTGC
GCGACGGCAGTACGCTGGAGATTGCTGAGCAGGCCAAGCGTGAGGGTGTCAAGACCATGCGCGAATCGGGCCTATACAAG
GTGAAACAAGGGCTGACATCCCTGGAAGAGGTTTTGGCAGTCACCAATGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(200-467)

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

(54-150)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A1Q8YKJ2

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

53.147

99.133

0.527
  pilB Acinetobacter baumannii D1279779

52.66

97.747

0.515
  pilF Neisseria gonorrhoeae MS11

51.943

98.094

0.51
  pilB Legionella pneumophila strain ERS1305867

49.652

99.48

0.494
  pilB Vibrio parahaemolyticus RIMD 2210633

43.599

100

0.437
  pilB Vibrio campbellii strain DS40M4

43.007

99.133

0.426
  pilB Vibrio cholerae strain A1552

46.243

89.948

0.416
  pilF Thermus thermophilus HB27

37.943

97.747

0.371

Multiple sequence alignment