Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LMH63_RS04390 Genome accession   NZ_CP086615
Coordinates   955396..957114 (-) Length   572 a.a.
NCBI ID   WP_109675912.1    Uniprot ID   A0A2U2N869
Organism   Spiribacter halobius strain E85     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 950396..962114
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LMH63_RS04365 (LMH63_04365) yacG 951577..951774 (-) 198 WP_109675922.1 DNA gyrase inhibitor YacG -
  LMH63_RS04370 (LMH63_04370) zapD 951777..952565 (-) 789 WP_109675920.1 cell division protein ZapD -
  LMH63_RS04375 (LMH63_04375) coaE 952632..953228 (-) 597 WP_109675918.1 dephospho-CoA kinase -
  LMH63_RS04380 (LMH63_04380) pilD 953232..954101 (-) 870 WP_109675916.1 A24 family peptidase Machinery gene
  LMH63_RS04385 (LMH63_04385) pilC 954153..955382 (-) 1230 WP_109675914.1 type II secretion system F family protein Machinery gene
  LMH63_RS04390 (LMH63_04390) pilB 955396..957114 (-) 1719 WP_109675912.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LMH63_RS04395 (LMH63_04395) - 957324..959120 (-) 1797 WP_109675910.1 EAL domain-containing protein -
  LMH63_RS04400 (LMH63_04400) - 959276..959554 (-) 279 WP_109676149.1 HU family DNA-binding protein -
  LMH63_RS04410 (LMH63_04410) - 960046..961023 (-) 978 WP_109675908.1 polyprenyl synthetase family protein -
  LMH63_RS04415 (LMH63_04415) rplU 961245..961559 (+) 315 WP_109675906.1 50S ribosomal protein L21 -
  LMH63_RS04420 (LMH63_04420) rpmA 961580..961840 (+) 261 WP_109675904.1 50S ribosomal protein L27 -

Sequence

Protein


Download         Length: 572 a.a.        Molecular weight: 62682.45 Da        Isoelectric Point: 4.9829

>NTDB_id=625714 LMH63_RS04390 WP_109675912.1 955396..957114(-) (pilB) [Spiribacter halobius strain E85]
MATANPSVRLGGLAGRLARDGLISEDDARQALEDARTAKQSFVTYLVEQKLVPAAAVAGSAAAEFGVPVFDLAALDLSHA
SVSLVSERLIRHHRALPLVKRGKRLFVAVSDPTNLEALDEFKFHTGLSTDPVLVEDDKLGTVIEKALEDSGAAFSDMDLD
QDLENLDVSGGEERSEDDAGASGDEDDAPVVRFINKVLLDAINKGASDIHFEPYEKEYRVRFRQDGVLREVAAPPIGLAL
RMSARIKVMARMDIAERRVPQDGRIKMNISRRRAIEFRVNTLPTIYGEKIVLRILDPSTAQMGIDQLGYEEDQKALFMEA
IHRPYGMVLVTGPTGSGKTVSLYTALNILNTADRNISTVEDPVEINVTGINQVHVNLKAGLTFPTALRAFLRQDPDIIMV
GEIRDLETAEIAVKAAQTGHLVLSTLHTNDAPQTLTRLANMGVPPYNIASSVNLIIAQRLARRLCKHCKEPVDIPREALL
KEGFREDELDDLTVYTAKGCDQCTNGYKGRVGIYQVMPVSEATERLILEGGNAMQIAEQAEKEGIRDLRTSGLMKVRQGV
TSLEEINRVTVD

Nucleotide


Download         Length: 1719 bp        

>NTDB_id=625714 LMH63_RS04390 WP_109675912.1 955396..957114(-) (pilB) [Spiribacter halobius strain E85]
ATGGCGACGGCGAACCCTTCCGTCAGGCTCGGCGGCCTTGCCGGCCGGCTGGCGCGGGATGGACTGATCAGCGAGGACGA
TGCACGCCAGGCGCTGGAAGACGCGCGCACGGCGAAGCAGTCGTTCGTCACCTATCTGGTCGAACAGAAGCTCGTGCCGG
CAGCGGCAGTGGCGGGCTCCGCCGCGGCCGAGTTCGGCGTGCCGGTATTCGACCTCGCCGCCCTGGACCTCTCCCACGCC
TCGGTATCCCTGGTCAGCGAGCGCCTGATCCGCCACCACCGCGCGCTGCCCCTGGTCAAGCGCGGCAAGCGCCTGTTCGT
CGCCGTCTCCGACCCCACCAACCTCGAGGCCCTGGACGAGTTCAAGTTCCACACCGGGCTCAGCACCGACCCGGTACTGG
TGGAGGACGACAAGCTCGGCACCGTCATCGAGAAGGCGCTGGAAGACAGCGGTGCGGCCTTCTCGGACATGGACCTGGAC
CAGGACCTGGAGAACCTGGACGTCAGCGGCGGCGAGGAGCGCAGCGAGGACGACGCCGGAGCCTCCGGCGACGAGGACGA
CGCGCCGGTCGTGCGCTTCATCAACAAGGTGCTGCTGGACGCCATCAACAAGGGCGCCTCGGACATCCACTTCGAGCCCT
ACGAAAAGGAATACCGGGTGCGCTTCCGTCAGGACGGCGTGCTGCGGGAGGTGGCCGCGCCGCCCATCGGCCTCGCCCTG
CGCATGTCCGCGCGCATCAAGGTCATGGCGCGCATGGACATCGCCGAGCGTCGGGTGCCCCAGGACGGGCGCATCAAGAT
GAACATCTCCCGGCGCAGGGCCATCGAGTTCCGCGTCAACACGCTGCCGACGATCTACGGCGAGAAGATCGTGCTGCGTA
TCCTCGATCCGAGCACGGCCCAGATGGGCATCGACCAGCTCGGCTACGAGGAGGACCAGAAGGCGCTGTTCATGGAGGCC
ATCCACCGGCCCTACGGGATGGTGCTGGTGACCGGCCCCACCGGCTCCGGCAAGACGGTCTCGCTCTACACCGCGCTCAA
CATCCTCAACACCGCCGACCGCAACATCTCGACGGTCGAGGATCCGGTGGAGATCAACGTCACCGGCATCAACCAGGTGC
ACGTGAACCTCAAGGCGGGGCTCACCTTCCCCACCGCCCTGCGTGCCTTCCTGCGCCAGGATCCGGACATCATCATGGTG
GGTGAGATCCGCGACCTGGAGACCGCGGAGATCGCGGTGAAGGCCGCTCAGACCGGCCATCTGGTGCTCTCCACCCTGCA
CACCAACGATGCGCCGCAGACGCTGACGCGACTCGCCAACATGGGCGTGCCGCCCTACAACATCGCCTCCTCGGTGAACC
TCATCATCGCCCAGCGCCTGGCGCGGCGGCTGTGCAAGCACTGCAAGGAGCCGGTGGACATCCCGCGCGAGGCCCTGCTG
AAGGAGGGTTTCCGCGAGGACGAGCTGGATGACCTCACCGTCTACACCGCCAAGGGCTGCGACCAGTGCACCAACGGCTA
CAAGGGCCGCGTCGGCATCTATCAGGTGATGCCGGTGAGCGAGGCCACCGAGCGGCTGATCCTCGAGGGCGGCAACGCCA
TGCAGATCGCCGAACAGGCGGAGAAGGAAGGGATCCGGGACCTGCGCACCTCCGGGCTGATGAAGGTCCGCCAGGGTGTG
ACGAGCCTGGAGGAGATCAACCGCGTGACCGTGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(196-463)

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

(17-148)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A2U2N869

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

58.115

100

0.582
  pilB Acinetobacter baylyi ADP1

55.496

98.601

0.547
  pilB Legionella pneumophila strain ERS1305867

54.261

100

0.545
  pilB Vibrio cholerae strain A1552

51.596

98.601

0.509
  pilF Neisseria gonorrhoeae MS11

48.85

98.776

0.483
  pilB Vibrio parahaemolyticus RIMD 2210633

47.059

98.077

0.462
  pilB Vibrio campbellii strain DS40M4

46.466

98.951

0.46
  pilB/pilB1 Synechocystis sp. PCC 6803

41.699

90.559

0.378
  pilF Thermus thermophilus HB27

38.571

97.902

0.378
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.13

96.503

0.378