Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LPB072_RS04985 Genome accession   NZ_CP017476
Coordinates   1032723..1034462 (-) Length   579 a.a.
NCBI ID   WP_066092421.1    Uniprot ID   A0A167HIH8
Organism   Hydrogenophaga crassostreae strain LPB0072     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1027723..1039462
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPB072_RS04960 (LPB072_04960) - 1028539..1028988 (+) 450 WP_231943430.1 NUDIX domain-containing protein -
  LPB072_RS22980 - 1029005..1029211 (-) 207 WP_082877004.1 DNA gyrase inhibitor YacG -
  LPB072_RS04965 (LPB072_04965) zapD 1029211..1029966 (-) 756 WP_066092409.1 cell division protein ZapD -
  LPB072_RS04970 (LPB072_04970) coaE 1030010..1030624 (-) 615 WP_066092412.1 dephospho-CoA kinase -
  LPB072_RS04975 (LPB072_04975) - 1030621..1031475 (-) 855 WP_066092415.1 A24 family peptidase -
  LPB072_RS04980 (LPB072_04980) pilC 1031475..1032692 (-) 1218 WP_066092418.1 type II secretion system F family protein Machinery gene
  LPB072_RS04985 (LPB072_04985) pilB 1032723..1034462 (-) 1740 WP_066092421.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LPB072_RS04990 (LPB072_04990) - 1034757..1035686 (-) 930 WP_066092424.1 polyprenyl synthetase family protein -
  LPB072_RS04995 (LPB072_04995) rplU 1035962..1036273 (+) 312 WP_066092426.1 50S ribosomal protein L21 -
  LPB072_RS05000 (LPB072_05000) rpmA 1036289..1036546 (+) 258 WP_066092429.1 50S ribosomal protein L27 -
  LPB072_RS05005 (LPB072_05005) cgtA 1036676..1037755 (+) 1080 WP_066092432.1 Obg family GTPase CgtA -
  LPB072_RS05010 (LPB072_05010) proB 1037797..1038960 (+) 1164 WP_066092435.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 579 a.a.        Molecular weight: 62869.40 Da        Isoelectric Point: 5.3307

>NTDB_id=198606 LPB072_RS04985 WP_066092421.1 1032723..1034462(-) (pilB) [Hydrogenophaga crassostreae strain LPB0072]
MASVDTVIQDTSSMALPGLGRALVSAGKLNQKAAEDLYKKAQSGRTSFIAELTGSGAVSASDLAHTMSVAFAAPLLDLDA
IDAQRLPQDLLDPKICSDYRIVVLSKRNNRLLVATADPADQQVAEKIKFATQLGVDWVIAEFDKLSALVESQSTTANQAM
DNIIGGEFEFDEMAAEAAVTESSDKTLTAEVDDAPVVKFLHKMLLDAFNMRASDLHFEPYEHQYRVRFRIDGELREIASP
PIAIKDKLASRIKVISRMDISEKRIPQDGRMKLKVGPDRVIDFRVSSLPTLFGEKIVIRILDPSSAKLGIDALGYEPEEK
ERLLDAISRPYGMVLVTGPTGSGKTVSLYTCLNILNKPGINISTAEDPSEINLPGVNQVNVNEKAGLTFAAALKAFLRQD
PDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMMNMGIPTFNIASSVILITAQRLARKLCGTCKVPLDV
PRKALIEAGFKAEELDGSWTPFKPVGCSACNNGYKGRVGIYQVMPITEEMQRIILKGGSALDIALQATKDGVRSLRESGL
LKVKQGMTSLEEILNVTNE

Nucleotide


Download         Length: 1740 bp        

>NTDB_id=198606 LPB072_RS04985 WP_066092421.1 1032723..1034462(-) (pilB) [Hydrogenophaga crassostreae strain LPB0072]
ATGGCATCTGTTGATACGGTGATTCAGGACACATCCTCCATGGCACTCCCCGGTTTGGGACGTGCGCTGGTGTCTGCAGG
AAAACTCAACCAAAAAGCGGCTGAGGATCTTTATAAAAAGGCCCAAAGCGGGCGCACAAGTTTCATTGCCGAGCTCACTG
GGTCTGGTGCGGTATCGGCGTCGGACCTGGCCCACACCATGTCGGTCGCTTTCGCTGCGCCGTTGCTGGATCTCGATGCC
ATTGATGCTCAGCGTCTCCCGCAAGACCTGCTCGACCCGAAAATATGCTCGGACTACCGAATCGTTGTCCTTAGCAAACG
CAACAACCGGCTGCTGGTGGCCACGGCAGACCCTGCAGACCAGCAGGTAGCTGAAAAGATCAAGTTCGCGACACAGTTGG
GCGTCGACTGGGTCATTGCCGAGTTTGACAAGCTCAGCGCACTGGTCGAAAGCCAGTCGACCACGGCCAATCAGGCCATG
GACAACATCATTGGTGGCGAATTCGAATTTGACGAAATGGCGGCCGAGGCTGCCGTCACAGAATCGAGCGATAAGACGCT
CACAGCCGAAGTTGATGACGCTCCGGTGGTCAAGTTTCTGCACAAGATGCTGCTGGACGCCTTCAACATGCGCGCCTCTG
ACCTGCACTTCGAACCATACGAACACCAGTACCGGGTGCGTTTCCGTATCGATGGTGAGCTGAGAGAGATTGCGTCACCA
CCTATTGCGATCAAAGACAAACTGGCCTCGCGGATCAAGGTGATTTCGCGAATGGACATTTCCGAGAAACGGATACCCCA
AGACGGTCGAATGAAGCTCAAGGTTGGGCCTGATCGAGTGATCGACTTTCGGGTCAGCTCACTGCCCACGCTGTTTGGCG
AAAAGATCGTGATCCGTATTCTGGATCCGAGTAGCGCCAAACTCGGCATTGATGCGCTGGGCTACGAGCCAGAGGAAAAG
GAACGCCTGCTGGACGCCATTTCACGACCCTATGGGATGGTGCTCGTGACAGGGCCAACGGGGTCGGGGAAGACCGTTTC
TCTATACACCTGCCTGAACATCCTGAACAAGCCGGGTATCAACATTTCCACGGCCGAAGACCCTTCGGAAATTAACTTGC
CTGGCGTCAACCAGGTGAACGTCAACGAAAAAGCAGGCCTGACATTCGCAGCTGCGCTTAAAGCTTTTCTGCGCCAAGAT
CCTGACATCATCATGGTGGGTGAGATTCGCGACCTTGAAACGGCGGACATTTCAATCAAGGCCGCGCAAACGGGTCACTT
GGTGCTGTCTACTCTGCACACCAACGATGCGCCCACGACGCTGACCCGCATGATGAACATGGGCATTCCCACGTTCAATA
TCGCTTCCAGTGTGATCCTGATCACCGCTCAGCGTTTGGCCCGAAAACTGTGTGGCACATGCAAGGTGCCTTTGGATGTA
CCTCGCAAAGCGCTGATCGAGGCGGGTTTCAAGGCCGAGGAACTGGACGGCAGCTGGACCCCGTTCAAGCCCGTAGGCTG
CTCGGCGTGCAATAACGGATACAAGGGACGAGTTGGCATCTACCAAGTGATGCCGATTACAGAGGAAATGCAACGCATCA
TCCTCAAGGGTGGAAGCGCACTGGATATTGCCCTGCAGGCGACCAAGGATGGCGTGCGAAGCCTCCGTGAATCGGGCCTT
CTCAAAGTCAAACAAGGCATGACCTCGCTTGAGGAAATCTTGAACGTGACCAACGAGTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(202-469)

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

(54-149)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A167HIH8

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

53.752

98.964

0.532
  pilB Acinetobacter baumannii D1279779

53.954

98.273

0.53
  pilF Neisseria gonorrhoeae MS11

51.761

98.1

0.508
  pilB Legionella pneumophila strain ERS1305867

51.049

98.791

0.504
  pilB Vibrio campbellii strain DS40M4

46.004

97.237

0.447
  pilB Vibrio parahaemolyticus RIMD 2210633

45.811

96.891

0.444
  pilB Vibrio cholerae strain A1552

48.456

89.465

0.434
  pilF Thermus thermophilus HB27

37.413

98.791

0.37
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.979

99.482

0.368

Multiple sequence alignment