Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JNX00_RS05060 Genome accession   NZ_CP070223
Coordinates   1027871..1029601 (-) Length   576 a.a.
NCBI ID   WP_070399114.1    Uniprot ID   A0A8I1UBZ4
Organism   Hydrogenophaga sp. YM1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1022871..1034601
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JNX00_RS05030 (JNX00_05030) - 1023690..1024139 (+) 450 WP_204744288.1 (deoxy)nucleoside triphosphate pyrophosphohydrolase -
  JNX00_RS05035 (JNX00_05035) - 1024153..1024353 (-) 201 WP_204744289.1 DNA gyrase inhibitor YacG -
  JNX00_RS05040 (JNX00_05040) zapD 1024358..1025113 (-) 756 WP_070399233.1 cell division protein ZapD -
  JNX00_RS05045 (JNX00_05045) coaE 1025157..1025765 (-) 609 WP_204744290.1 dephospho-CoA kinase -
  JNX00_RS05050 (JNX00_05050) pilD 1025762..1026619 (-) 858 WP_204744291.1 A24 family peptidase Machinery gene
  JNX00_RS05055 (JNX00_05055) pilC 1026619..1027836 (-) 1218 WP_070399115.1 type II secretion system F family protein Machinery gene
  JNX00_RS05060 (JNX00_05060) pilB 1027871..1029601 (-) 1731 WP_070399114.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JNX00_RS05070 (JNX00_05070) - 1029902..1030831 (-) 930 WP_083293165.1 polyprenyl synthetase family protein -
  JNX00_RS05075 (JNX00_05075) rplU 1031111..1031422 (+) 312 WP_070399112.1 50S ribosomal protein L21 -
  JNX00_RS05080 (JNX00_05080) rpmA 1031435..1031692 (+) 258 WP_070399111.1 50S ribosomal protein L27 -
  JNX00_RS05085 (JNX00_05085) cgtA 1031773..1032867 (+) 1095 WP_204744292.1 Obg family GTPase CgtA -
  JNX00_RS05090 (JNX00_05090) proB 1032864..1034021 (+) 1158 WP_204744293.1 glutamate 5-kinase -
  JNX00_RS05095 (JNX00_05095) - 1034028..1034546 (-) 519 WP_204744294.1 CNP1-like family protein -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62859.37 Da        Isoelectric Point: 5.6391

>NTDB_id=538720 JNX00_RS05060 WP_070399114.1 1027871..1029601(-) (pilB) [Hydrogenophaga sp. YM1]
MASVDSVNQDSPSMALPGLGRALVSAGKLNQRAAEDLYRKAQSSRTSFIAELTGSGAVSPTDLAHTMSVAFAAPLLDLDA
IDVQRLPAGLLDAKICADFRIVVLSKRNNRLIVATADPSDQQAAEKIKFATQMGVDWVIAEFDKLSRLVEAQTKSVTEAM
ENIVGDVEFDELAAETTTADAAEKASEVDDAPVVKFLHKMLIDAFNMRASDLHFEPYEHQYRVRFRIDGELREIASPPVA
IKEKLASRIKVISRMDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSQAKMGIDALGYEPEEKERL
LEAIQRPYGMVLVTGPTGSGKTVSLYTCLNILNKPGVNISTAEDPSEINLPGVNQVNMNEKAGLTFAVALKAFLRQDPDV
IMVGEIRDLETADIAIKAAQTGHMVMSTLHTNDAPTTLTRMMNMGIPTFNIASSVILITAQRLARRLCPNCKAPLDVPRK
ALLEAGYKPEELDGTWTPYKPVGCSACNNGYKGRVGIYQVMPISEEIQRIILRGGTSLDIAQQASKEGVRSLRESGLLKV
KLGQTSLEEVLSVTNE

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=538720 JNX00_RS05060 WP_070399114.1 1027871..1029601(-) (pilB) [Hydrogenophaga sp. YM1]
ATGGCGTCAGTTGATTCGGTGAACCAGGACAGTCCGTCCATGGCCCTTCCGGGGCTTGGGCGCGCGCTCGTGTCCGCGGG
CAAGCTCAACCAGCGCGCGGCCGAGGACCTTTACCGCAAGGCCCAAAGCAGCCGAACCAGCTTTATTGCCGAGTTGACCG
GCTCCGGCGCGGTGTCGCCCACGGACCTGGCGCACACCATGTCGGTGGCTTTCGCGGCCCCCCTGCTCGACCTCGATGCC
ATCGATGTGCAGCGGCTGCCTGCCGGCTTGCTGGACGCCAAGATCTGCGCCGACTTCCGCATCGTCGTCCTTAGCAAACG
CAACAACCGCCTGATCGTCGCGACGGCGGATCCGTCCGACCAGCAGGCGGCCGAAAAGATCAAGTTCGCCACGCAGATGG
GCGTGGACTGGGTCATCGCGGAGTTCGACAAACTCAGCCGCCTGGTCGAAGCGCAGACCAAATCGGTCACCGAGGCGATG
GAGAACATCGTCGGCGACGTCGAGTTCGATGAGCTGGCTGCCGAAACCACCACCGCCGATGCCGCCGAAAAGGCCAGCGA
AGTCGACGATGCCCCGGTCGTCAAGTTCCTGCACAAGATGCTGATCGACGCGTTCAACATGCGCGCTTCCGACCTGCACT
TCGAGCCCTACGAACACCAGTACCGCGTGCGCTTCCGCATCGACGGTGAACTGCGCGAGATTGCCTCACCCCCGGTCGCC
ATCAAGGAAAAGCTGGCCTCGCGCATCAAGGTCATCTCGCGGATGGATATTTCCGAGAAGCGCGTCCCGCAAGACGGCCG
GATGAAGCTCAAGGTCGGGCCCGATCGCGTCATCGACTTCCGTGTCAGCACACTGCCCACGCTGTTTGGCGAGAAGATCG
TGATCCGCATCCTCGACCCAAGCCAGGCCAAGATGGGTATCGACGCCCTGGGCTATGAGCCGGAAGAGAAAGAGCGTCTG
CTGGAGGCCATCCAGCGCCCCTACGGCATGGTGCTGGTCACCGGTCCCACGGGCTCCGGCAAGACGGTCTCGCTCTACAC
CTGTCTGAACATCCTGAACAAGCCCGGCGTAAACATTTCGACGGCCGAAGACCCGTCCGAAATCAACCTGCCCGGCGTGA
ACCAGGTGAACATGAACGAGAAGGCGGGCCTGACCTTTGCCGTCGCGCTCAAGGCCTTCCTGCGCCAGGACCCGGACGTG
ATCATGGTCGGCGAGATCCGCGACCTGGAAACCGCCGACATCGCGATCAAGGCCGCGCAGACCGGTCACATGGTCATGTC
GACGCTGCACACCAACGACGCGCCGACGACACTCACGCGGATGATGAACATGGGCATTCCCACGTTCAACATCGCCTCCA
GCGTGATCCTCATCACCGCCCAGCGCCTGGCGCGCCGCCTGTGCCCCAACTGCAAGGCGCCGCTGGACGTTCCCCGCAAG
GCCTTGCTCGAGGCCGGCTACAAGCCCGAGGAGCTTGACGGCACCTGGACGCCCTACAAGCCGGTGGGCTGCTCGGCCTG
CAACAACGGCTACAAGGGGCGCGTCGGCATCTACCAGGTGATGCCGATCTCCGAAGAGATCCAGCGCATCATCCTGCGCG
GCGGCACCTCACTGGACATCGCGCAGCAGGCCAGCAAGGAAGGCGTTCGCTCGCTGCGGGAGTCCGGCTTGCTCAAGGTC
AAGCTGGGACAGACCTCGCTTGAGGAAGTCCTCAGCGTGACGAACGAATGA

Domains

Predicted by InterproScan.

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

(53-149)

Type II/IV secretion system protein (T2SSE)

(199-466)


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

54.707

97.743

0.535
  pilB Acinetobacter baumannii D1279779

54.707

97.743

0.535
  pilF Neisseria gonorrhoeae MS11

53.203

97.569

0.519
  pilB Legionella pneumophila strain ERS1305867

50.619

98.09

0.497
  pilB Vibrio parahaemolyticus RIMD 2210633

45.259

97.049

0.439
  pilB Vibrio campbellii strain DS40M4

44.742

97.396

0.436
  pilB Vibrio cholerae strain A1552

47.195

89.757

0.424
  pilF Thermus thermophilus HB27

37.655

97.743

0.368