Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACFGDV_RS04585 Genome accession   NZ_CP176528
Coordinates   948991..950721 (-) Length   576 a.a.
NCBI ID   WP_136413184.1    Uniprot ID   -
Organism   Noviherbaspirillum sp. ST 5-3     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 943991..955721
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACFGDV_RS04560 yacG 945162..945350 (-) 189 WP_136413189.1 DNA gyrase inhibitor YacG -
  ACFGDV_RS04565 zapD 945359..946114 (-) 756 WP_136413188.1 cell division protein ZapD -
  ACFGDV_RS04570 coaE 946251..946883 (-) 633 WP_136413187.1 dephospho-CoA kinase -
  ACFGDV_RS04575 pilD 946885..947751 (-) 867 WP_136413186.1 prepilin peptidase Machinery gene
  ACFGDV_RS04580 pilG 947751..948977 (-) 1227 WP_136413185.1 type II secretion system F family protein Machinery gene
  ACFGDV_RS04585 pilB 948991..950721 (-) 1731 WP_136413184.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACFGDV_RS04590 - 950874..952145 (-) 1272 WP_136413183.1 HlyC/CorC family transporter -
  ACFGDV_RS04595 - 952172..952894 (-) 723 WP_136413182.1 hypothetical protein -
  ACFGDV_RS04605 ispB 953252..954241 (-) 990 WP_136413181.1 octaprenyl diphosphate synthase -
  ACFGDV_RS04610 rplU 954470..954781 (+) 312 WP_136413180.1 50S ribosomal protein L21 -
  ACFGDV_RS04615 rpmA 954823..955080 (+) 258 WP_136413179.1 50S ribosomal protein L27 -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62826.50 Da        Isoelectric Point: 4.8295

>NTDB_id=1080713 ACFGDV_RS04585 WP_136413184.1 948991..950721(-) (pilB) [Noviherbaspirillum sp. ST 5-3]
MAAVLPNQASTTTMSGLARALVQAGRLSAQQADTLNKQAIADKVAFIDVLLASGNIDSLSLATFCSETFGYPMLDFSAFN
SSFLPENIIDARLMQKQRVVALAKRGNKVSVAISDPTNTHTLDQIKFQTELTVEPVIVEHPVLLKLVEKLGQSTEESLTE
MIGDDLDIDLSDEEMPATGPSEAATAEIDDAPVVKFLQKILLDAINMGASDLHFEPFEKFYRIRFRVDGILREVAQPPLA
IKEKLASRIKVISKLDISEKRVPQDGRMKLVVSKNRAIDFRVSTLPTLFGEKIVMRILDPSQAQMGIDALGYDPDQKELL
LKAIERPYGMVLVTGPTGSGKTVSLYTCLNILNKPGINISTAEDPAEINLPGVNQVNVNDRAGLTFAAALKAFLRQDPDI
IMVGEIRDLETADIAIKAAQTGHMVFSTLHTNDAPSTLTRLMNMGVAPFNIASSVIMITAQRLARRLCTCKQPVAIPDEA
LLEAGFKEEDLDGTWMPYKAIGCERCSGSGYKGRVGIYQIMPISEEIERIILAHGTALEIEEQARQDGVKTLREAGLVKV
KQGMTSLEEVLGCTNE

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=1080713 ACFGDV_RS04585 WP_136413184.1 948991..950721(-) (pilB) [Noviherbaspirillum sp. ST 5-3]
ATGGCAGCGGTTCTCCCCAATCAAGCTTCAACTACGACGATGTCCGGCCTCGCACGTGCCTTGGTGCAAGCCGGGCGATT
GTCCGCTCAGCAAGCAGATACATTGAACAAGCAAGCCATTGCCGACAAAGTTGCGTTTATCGATGTCCTGCTGGCTAGCG
GAAACATCGACTCGCTCTCGCTCGCCACTTTCTGCTCGGAAACTTTCGGATATCCGATGCTGGATTTCTCGGCATTCAAT
TCGAGCTTCCTTCCGGAAAATATTATCGATGCACGCCTGATGCAAAAGCAGCGCGTCGTAGCGTTGGCAAAGCGCGGCAA
CAAAGTCTCGGTCGCGATTTCTGACCCGACCAATACGCATACGCTGGACCAGATCAAGTTCCAGACAGAGTTGACCGTTG
AACCGGTGATTGTTGAACACCCGGTGCTGTTGAAACTCGTCGAAAAACTCGGCCAAAGCACAGAGGAAAGTCTCACCGAG
ATGATTGGTGACGACTTGGATATTGATCTCAGCGACGAGGAAATGCCGGCAACCGGACCGAGCGAGGCAGCCACGGCAGA
AATCGATGATGCGCCGGTTGTCAAATTCCTCCAAAAGATCTTGCTGGATGCAATCAATATGGGTGCATCCGATTTGCACT
TCGAACCGTTCGAGAAGTTTTACCGCATCCGTTTCCGCGTTGACGGGATTTTGCGCGAGGTGGCACAACCTCCGCTTGCG
ATCAAGGAAAAGCTGGCGTCGCGCATCAAGGTGATTTCCAAGCTCGACATCTCGGAAAAGCGCGTGCCGCAAGACGGACG
GATGAAGCTGGTCGTATCCAAGAATCGCGCGATCGATTTTCGCGTCAGCACCCTGCCGACGCTGTTTGGCGAAAAGATCG
TGATGCGTATTCTGGATCCCAGCCAGGCGCAAATGGGTATCGATGCGCTGGGATACGATCCGGACCAGAAGGAACTCTTG
CTGAAAGCAATCGAGCGGCCATACGGCATGGTGCTGGTCACCGGACCGACGGGCTCAGGCAAGACCGTCTCTCTTTACAC
CTGCCTGAACATTCTGAACAAGCCTGGCATCAACATCTCCACGGCAGAAGATCCGGCGGAAATCAATTTGCCCGGCGTGA
ATCAGGTCAACGTCAACGACCGCGCCGGCCTGACATTCGCCGCAGCGCTGAAGGCATTTCTCCGGCAAGATCCGGACATC
ATCATGGTGGGTGAAATTCGCGACCTGGAAACTGCCGATATCGCGATCAAGGCTGCGCAAACCGGCCACATGGTGTTCTC
CACGCTGCATACCAATGACGCGCCATCGACGTTGACCCGCCTGATGAACATGGGCGTGGCACCCTTCAATATCGCTTCAT
CGGTCATCATGATTACGGCGCAGCGTTTGGCGCGACGCCTTTGCACTTGCAAGCAACCCGTCGCCATTCCCGATGAAGCG
CTGCTCGAGGCAGGATTCAAGGAGGAAGATCTGGATGGGACGTGGATGCCATACAAGGCGATTGGATGCGAGCGCTGCAG
CGGCAGCGGCTACAAGGGCCGGGTCGGTATCTACCAGATCATGCCGATCTCGGAAGAAATCGAGCGCATCATCCTTGCGC
ATGGCACAGCGCTCGAGATCGAAGAGCAAGCCAGGCAGGATGGCGTCAAAACCTTGCGCGAAGCCGGACTTGTCAAGGTC
AAACAGGGCATGACAAGCCTGGAAGAAGTGCTCGGCTGCACCAACGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(199-466)

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

(21-155)


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

55.148

99.479

0.549
  pilF Neisseria gonorrhoeae MS11

54.991

99.132

0.545
  pilB Acinetobacter baylyi ADP1

54.867

98.09

0.538
  pilB Legionella pneumophila strain ERS1305867

50.352

98.611

0.497
  pilB Vibrio cholerae strain A1552

47.518

97.917

0.465
  pilB Vibrio parahaemolyticus RIMD 2210633

46.454

97.917

0.455
  pilB Vibrio campbellii strain DS40M4

45.76

98.264

0.45
  pilF Thermus thermophilus HB27

41.144

94.097

0.387
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.743

99.479

0.385

Multiple sequence alignment