Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RDV84_RS12400 Genome accession   NZ_CP133568
Coordinates   2924113..2925840 (-) Length   575 a.a.
NCBI ID   WP_078998159.1    Uniprot ID   -
Organism   Lysobacter yananisis strain SNNU513     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2919113..2930840
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDV84_RS12380 (RDV84_12380) - 2920179..2921096 (+) 918 WP_309153565.1 Nudix family hydrolase -
  RDV84_RS12385 (RDV84_12385) coaE 2921315..2921929 (-) 615 WP_309153566.1 dephospho-CoA kinase -
  RDV84_RS12390 (RDV84_12390) - 2921934..2922821 (-) 888 WP_057948799.1 A24 family peptidase -
  RDV84_RS12395 (RDV84_12395) pilC 2922841..2924109 (-) 1269 WP_078998160.1 type II secretion system F family protein Machinery gene
  RDV84_RS12400 (RDV84_12400) pilB 2924113..2925840 (-) 1728 WP_078998159.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RDV84_RS12405 (RDV84_12405) - 2925918..2927624 (-) 1707 WP_309153567.1 phosphoethanolamine transferase -
  RDV84_RS12410 (RDV84_12410) - 2927683..2928123 (-) 441 WP_078998157.1 pilin -
  RDV84_RS12415 (RDV84_12415) - 2928964..2929419 (-) 456 WP_078998156.1 pilin -

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 62643.94 Da        Isoelectric Point: 6.3073

>NTDB_id=874946 RDV84_RS12400 WP_078998159.1 2924113..2925840(-) (pilB) [Lysobacter yananisis strain SNNU513]
MSVATTANLVGITGIARRLVLDGALDDARAREALAAATSERKPIAAYLTEHRLVTPNQLAAAHSVEFGVPLFDPSAMDPG
QAAVRMIGEDLIRKHNALPLFKRGNKIFIGLSDPTNTSALDEIKFQTNAAVEAILVDEDLIRRTLDRWLETSDSLGDTVG
DGEGLETLEIGKDDDLSTKGDSGIDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYETDYRVRLRIDGLLKQVAKVPNK
LHSRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKTKQIDFRMSTLPTLFGEKIVLRILDGSAARLGIEKLGYEDDQKELF
VGAVVKPYGMVLVTGPTGSGKTVSLYTALNILNDEQRNISTVEDPVEIRVPGINQVQMNVKRGMTFAAALRSFLRQDPDV
IMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGVAPYNITSSVTLVIAQRLARRLHDCKREVHLPEHA
LLAEGFTHEEVAAGITLFEPVGCPDCTEGYKGRTGIYQVMPMTDEIQAIVLEGGNAMQIAAAATRSGVRDLRRSALVKVL
NGVTSLAEINRVTKD

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=874946 RDV84_RS12400 WP_078998159.1 2924113..2925840(-) (pilB) [Lysobacter yananisis strain SNNU513]
ATGTCCGTGGCAACGACAGCCAACCTGGTCGGCATCACCGGCATCGCCCGGCGCTTGGTGCTGGACGGCGCCCTGGATGA
CGCGCGGGCCCGCGAAGCCTTGGCCGCGGCGACCAGCGAGCGCAAGCCGATCGCCGCCTATCTCACCGAACACCGGCTGG
TCACGCCGAACCAGCTCGCGGCCGCCCACTCGGTCGAGTTCGGCGTGCCGTTGTTCGATCCCAGCGCGATGGATCCGGGC
CAGGCGGCCGTGCGCATGATCGGCGAAGACCTGATCCGCAAGCACAACGCCCTGCCGTTGTTCAAACGCGGCAACAAGAT
CTTCATCGGCCTGTCCGATCCGACCAACACCTCCGCGCTGGACGAGATCAAGTTCCAGACCAACGCCGCGGTCGAGGCGA
TCCTGGTCGACGAGGACCTGATCCGGCGCACGCTCGATCGCTGGCTGGAGACCTCCGACTCGCTCGGCGACACGGTCGGC
GACGGCGAAGGCCTGGAAACGCTGGAAATCGGCAAGGACGACGACCTGTCGACCAAGGGCGACAGCGGCATCGACGCCAA
GGGCGACGACACTCCCGTCGTCAAGTTCGTCAACAAGGTCCTGGTCGACGCGATCCGCCGCGGCGCGTCCGACATCCATT
TCGAGCCTTACGAAACCGACTACCGCGTGCGCCTGCGCATCGACGGCCTGCTCAAGCAGGTCGCCAAGGTGCCCAACAAG
CTGCACTCGCGCATCGCCGCGCGCCTGAAGGTCATGGCGCAGTTGGACATCGCCGAGAAGCGCGTGCCGCAGGACGGCCG
CATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGCATGAGCACCTTGCCGACCCTGTTCGGCGAGAAGATCG
TGCTGCGTATCCTCGACGGCTCCGCCGCCCGCCTGGGCATCGAGAAGCTCGGCTACGAGGACGACCAGAAGGAGTTGTTC
GTCGGCGCGGTGGTCAAGCCCTACGGCATGGTCCTGGTGACCGGCCCGACCGGCTCGGGCAAGACGGTGTCGCTGTACAC
CGCGCTCAACATCCTCAACGACGAGCAGCGCAACATCTCAACGGTCGAGGACCCGGTCGAAATCCGCGTGCCGGGCATCA
ACCAGGTGCAGATGAACGTCAAGCGCGGCATGACCTTCGCCGCCGCGCTGCGCAGCTTCCTGCGCCAGGACCCGGACGTG
ATCATGGTCGGCGAAATCCGCGACCTCGAGACCGCCGAAATCGCGATCAAGGCCGCGCAGACCGGCCACATGGTGCTGTC
CACCCTGCACACCAACGACGCCCCGCAGACCATCGCGCGTCTCATGAACATGGGCGTGGCGCCGTACAACATCACCTCCT
CGGTGACCCTGGTGATCGCCCAGCGACTGGCCCGGCGCCTGCACGACTGCAAGCGCGAAGTGCATCTGCCGGAACATGCG
CTGCTGGCCGAAGGCTTCACCCACGAGGAAGTCGCCGCCGGCATCACCCTGTTCGAACCGGTCGGCTGCCCCGACTGCAC
CGAAGGCTACAAGGGACGTACCGGCATCTACCAGGTCATGCCGATGACCGACGAAATCCAGGCGATCGTGCTCGAAGGCG
GCAACGCGATGCAGATCGCCGCCGCCGCCACGAGGTCGGGCGTGCGCGACCTGCGCCGTTCGGCGCTGGTCAAGGTGCTC
AACGGCGTCACCAGCCTGGCCGAAATCAACCGCGTAACCAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(199-466)

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

(48-152)


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

55.44

100

0.558
  pilB Acinetobacter baumannii D1279779

55.282

98.783

0.546
  pilB Legionella pneumophila strain ERS1305867

50.263

99.304

0.499
  pilB Vibrio cholerae strain A1552

51.657

89.217

0.461
  pilF Neisseria gonorrhoeae MS11

47.97

94.261

0.452
  pilB Vibrio parahaemolyticus RIMD 2210633

48.479

91.478

0.443
  pilB Vibrio campbellii strain DS40M4

51.129

84.696

0.433
  pilB/pilB1 Synechocystis sp. PCC 6803

35.737

100

0.388
  pilF Thermus thermophilus HB27

39.279

91.652

0.36