Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   V4939_RS04690 Genome accession   NZ_CP144733
Coordinates   985362..987062 (-) Length   566 a.a.
NCBI ID   WP_012699854.1    Uniprot ID   M9YDI3
Organism   Azotobacter vinelandii DJ     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 980362..992062
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V4939_RS04655 (V4939_04655) - 980403..980828 (+) 426 WP_012699848.1 GNAT family N-acetyltransferase -
  V4939_RS04660 (V4939_04660) - 980825..981292 (+) 468 WP_012699849.1 hypothetical protein -
  V4939_RS04665 (V4939_04665) - 981289..981975 (+) 687 WP_012699850.1 energy-coupling factor ABC transporter permease -
  V4939_RS04670 (V4939_04670) yacG 982081..982281 (-) 201 WP_041806982.1 DNA gyrase inhibitor YacG -
  V4939_RS04675 (V4939_04675) coaE 982278..982886 (-) 609 WP_012699851.1 dephospho-CoA kinase -
  V4939_RS04680 (V4939_04680) pilD 983048..983917 (-) 870 WP_012699852.1 A24 family peptidase Machinery gene
  V4939_RS04685 (V4939_04685) pilC 983920..985137 (-) 1218 WP_012699853.1 type II secretion system F family protein Machinery gene
  V4939_RS04690 (V4939_04690) pilB 985362..987062 (-) 1701 WP_012699854.1 type IV-A pilus assembly ATPase PilB Machinery gene
  V4939_RS04695 (V4939_04695) - 987591..988088 (+) 498 WP_012699856.1 pilin -
  V4939_RS04700 (V4939_04700) nadC 988746..989594 (-) 849 WP_012699858.1 carboxylating nicotinate-nucleotide diphosphorylase -
  V4939_RS04705 (V4939_04705) ampD 989736..990299 (+) 564 WP_012699859.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  V4939_RS04710 (V4939_04710) ampE 990296..991138 (+) 843 WP_338460373.1 regulatory signaling modulator protein AmpE -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62620.67 Da        Isoelectric Point: 6.1657

>NTDB_id=934658 V4939_RS04690 WP_012699854.1 985362..987062(-) (pilB) [Azotobacter vinelandii DJ]
MHDDISLHGLARQMVLAGLIDEKTVLQAQRQAQRNQTPLVTWLVQNKLVKSRGLAELAAEQFGIALFDLGTLERENQPRD
LLSEKLIRQHRALPLWRRGNRLFVAISDPTNHEAIREIRFGTGLNTEAILVEDDRLGEAMEKYFEGADTALDDLADAGLD
GLDIEAGDRHDEALNPAGDAEDAPVVRFINKILLDAIRRGSSDLHFEPYEKSHRVRFRTDGILHEVARPPVRSAPKIAAR
LKVMAGLDISERRKPQDGRIRMKLPKGKAIDFRVNTLPTLWGEKVVMRILDPSSAQMGIDALGYEESQKALYLEALSQPQ
GMILVTGPTGSGKTVSLYTGLNILNTAEVNISTVEDPVEINLEGINQVNVNPRQGMDFSQALRAFLRQDPDIIMVGEIRD
LETAEIAIKAAQTGHMVMSTLHTNSAAETLTRLRNMGVPSFNIATSVNLIIAQRLARKLCACKQAVDIPHETLLAEGFPE
ERIGAFRLYAPTGCENCNGGYKGRVGIYEVVKITPALQRIIMGDGNSIDIARQMRAEGFNDLRASALWKAMQGVTSLEEV
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=934658 V4939_RS04690 WP_012699854.1 985362..987062(-) (pilB) [Azotobacter vinelandii DJ]
ATGCACGACGACATTTCCCTCCACGGTCTGGCACGGCAGATGGTGCTGGCCGGACTGATCGACGAGAAGACGGTCCTGCA
GGCCCAGCGGCAGGCACAGCGCAACCAGACCCCACTGGTCACCTGGCTGGTGCAGAACAAGCTGGTCAAGAGCCGGGGGT
TGGCGGAGCTGGCCGCGGAGCAGTTCGGCATCGCCCTGTTCGATCTCGGGACGCTGGAGCGGGAAAACCAGCCCCGCGAC
CTGCTCAGCGAGAAACTGATCCGCCAACATCGCGCTCTGCCGTTGTGGCGGCGCGGCAACCGGCTGTTCGTGGCGATTTC
CGACCCGACCAACCACGAGGCAATTCGTGAGATCCGCTTCGGCACCGGGCTGAACACCGAAGCCATCCTGGTCGAGGACG
ACCGTCTGGGCGAAGCCATGGAGAAGTACTTCGAGGGCGCCGACACCGCCCTGGACGATCTCGCAGACGCCGGGCTGGAC
GGCCTCGATATCGAAGCCGGCGACCGGCATGACGAAGCGCTCAATCCGGCCGGAGATGCCGAAGATGCGCCGGTGGTGCG
CTTCATCAACAAGATATTGCTGGATGCGATCCGCCGCGGCTCCTCGGATCTGCACTTCGAACCCTACGAGAAGAGCCACC
GGGTGCGTTTTCGCACCGACGGCATCCTCCATGAGGTGGCCCGGCCGCCCGTCCGGTCGGCGCCGAAGATCGCCGCGCGC
CTGAAAGTGATGGCCGGGCTGGATATCTCCGAGCGGCGCAAACCGCAGGACGGTCGGATCAGGATGAAGCTGCCGAAGGG
CAAGGCCATCGACTTTCGGGTCAACACCCTGCCCACGCTGTGGGGCGAAAAGGTGGTGATGCGGATTCTCGACCCGTCCA
GCGCGCAGATGGGTATCGATGCCCTCGGCTACGAGGAGAGCCAGAAGGCGCTCTACCTGGAGGCACTGAGCCAGCCGCAG
GGCATGATCCTGGTGACTGGTCCGACCGGTTCGGGCAAGACGGTGTCCCTGTATACCGGCCTGAACATTCTCAATACCGC
GGAGGTGAATATCTCCACCGTCGAGGACCCGGTGGAAATCAACCTGGAAGGCATCAACCAGGTCAACGTCAACCCACGCC
AGGGCATGGACTTCTCCCAGGCGCTGCGCGCCTTCCTGCGCCAGGACCCGGACATCATCATGGTCGGCGAGATCCGCGAC
CTGGAAACCGCGGAGATCGCCATCAAGGCCGCACAGACCGGCCACATGGTGATGTCCACCCTGCACACCAACAGCGCGGC
GGAAACCCTGACCCGCCTGCGCAACATGGGGGTGCCCTCCTTCAATATCGCCACCTCGGTGAACCTGATCATCGCCCAGC
GCCTGGCGCGCAAGCTGTGCGCCTGCAAGCAGGCGGTGGACATTCCCCACGAAACGCTGCTCGCCGAGGGATTTCCGGAA
GAGCGCATCGGCGCCTTCAGGCTTTATGCCCCGACCGGTTGCGAGAACTGCAACGGCGGCTACAAGGGCCGGGTCGGCAT
TTATGAAGTGGTTAAAATCACTCCGGCCCTGCAGCGCATTATCATGGGGGACGGCAACTCCATCGATATCGCCCGGCAGA
TGCGCGCCGAGGGTTTCAACGACTTGCGCGCATCGGCCCTGTGGAAAGCAATGCAGGGCGTCACCAGCCTGGAAGAAGTC
AACCGCGTCACCAAGGACTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

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

(43-147)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB M9YDI3

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

58.916

100

0.595
  pilB Acinetobacter baylyi ADP1

57.168

99.823

0.571
  pilB Legionella pneumophila strain ERS1305867

53.439

100

0.535
  pilF Neisseria gonorrhoeae MS11

49.912

99.823

0.498
  pilB Vibrio parahaemolyticus RIMD 2210633

48.611

100

0.495
  pilB Vibrio cholerae strain A1552

48.511

100

0.489
  pilB Vibrio campbellii strain DS40M4

48.496

99.823

0.484
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.414

93.993

0.38
  pilF Thermus thermophilus HB27

37.766

99.647

0.376
  pilB/pilB1 Synechocystis sp. PCC 6803

40.077

91.696

0.367