Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LA76x_RS05505 Genome accession   NZ_CP011129
Coordinates   1367923..1369650 (-) Length   575 a.a.
NCBI ID   WP_057916949.1    Uniprot ID   -
Organism   Lysobacter antibioticus strain 76     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 1370643..1379704 1367923..1369650 flank 993


Gene organization within MGE regions


Location: 1367923..1379704
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LA76x_RS05505 (LA76x_1188) pilB 1367923..1369650 (-) 1728 WP_057916949.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LA76x_RS05510 (LA76x_1189) - 1369786..1370646 (+) 861 WP_057916950.1 glycosyltransferase family 2 protein -
  LA76x_RS24000 - 1370643..1371347 (+) 705 WP_082647704.1 class I SAM-dependent methyltransferase -
  LA76x_RS05520 - 1371344..1372495 (+) 1152 WP_057916952.1 glycosyltransferase -
  LA76x_RS05525 - 1372488..1373348 (+) 861 WP_057916953.1 GNAT family N-acetyltransferase -
  LA76x_RS24005 - 1373319..1374383 (-) 1065 WP_187308477.1 NAD(P)-binding domain-containing protein -
  LA76x_RS05535 - 1374380..1375129 (-) 750 WP_057916955.1 class I SAM-dependent methyltransferase -
  LA76x_RS05540 (LA76x_1193) - 1375116..1375940 (-) 825 WP_057916956.1 lysylphosphatidylglycerol synthase domain-containing protein -
  LA76x_RS05545 - 1376124..1377296 (-) 1173 WP_057919928.1 DegT/DnrJ/EryC1/StrS family aminotransferase -
  LA76x_RS05550 (LA76x_1195) - 1377304..1379232 (-) 1929 WP_057916957.1 hypothetical protein -
  LA76x_RS26190 (LA76x_1196) - 1379288..1379704 (-) 417 WP_057916958.1 pilin -

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 62527.85 Da        Isoelectric Point: 6.2692

>NTDB_id=142593 LA76x_RS05505 WP_057916949.1 1367923..1369650(-) (pilB) [Lysobacter antibioticus strain 76]
MSSVATANLVGITGIARRLVLDGALDEVKAREAMAAATAERKPLATYLAEHRLATSAQLAAANSIEFGVPLFDPSALDPS
QSAVRAISEELIRKHSALPLFKRGNKLFIGLADPTNTAALDEIKFQTNAAVEAILVDDELIRRTLDRWLENSDALANAVG
DSDGLDTLEIGKDDDLSTTSDSGIDAKGDDTPVVKFINKVLVDAIRRGASDIHFEPYETDYRVRLRIDGLLKQVAKVPNK
LHSRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKTKQIDFRMSTLPTLFGEKIVLRILDGSAAKLGIEKLGYEDYQKELF
INAVAKPYGMVLVTGPTGSGKTVSLYTALNILNDEQRNISTVEDPVEIRVPGINQVQMNVKRGMTFAAALRSFLRQDPDV
IMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGVAPYNITSSVTLVIAQRLARRLHDCKREVHLPEHA
LLAEGFTAEEIASGFKLYEPAGCPDCTEGYKGRTGIYQVMPMTDEIQAIVLEGGNAMQIAAAAIKSGVNDLRRSALIKVM
NGVTGLAEINRVTKD

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=142593 LA76x_RS05505 WP_057916949.1 1367923..1369650(-) (pilB) [Lysobacter antibioticus strain 76]
ATGTCCAGCGTCGCAACCGCCAACTTGGTGGGTATCACCGGCATTGCCCGGCGTTTGGTTTTGGATGGAGCTTTGGACGA
GGTCAAGGCGCGCGAAGCCATGGCCGCGGCCACCGCCGAGCGCAAGCCACTGGCTACCTACCTCGCCGAACATCGCCTGG
CCACCTCCGCCCAACTGGCCGCCGCCAACTCGATCGAATTCGGCGTGCCGCTGTTCGACCCGAGCGCGCTGGACCCCAGC
CAGTCTGCGGTCCGGGCGATCAGCGAGGAACTGATCCGCAAACACAGCGCGCTGCCGCTGTTCAAACGCGGCAACAAGCT
GTTCATCGGCTTGGCCGATCCGACCAATACCGCCGCCCTGGACGAGATCAAGTTCCAGACCAATGCCGCGGTCGAAGCCA
TCCTGGTCGACGACGAGCTGATCCGGCGGACCCTGGACCGCTGGCTGGAGAACTCCGACGCCCTCGCCAACGCAGTCGGC
GATAGCGACGGCCTCGACACCCTGGAGATCGGCAAGGACGACGATCTCAGCACGACAAGCGACAGTGGCATCGACGCCAA
GGGCGACGATACCCCGGTCGTAAAGTTCATCAACAAGGTTCTGGTCGACGCCATCCGCCGCGGCGCCTCGGACATCCACT
TCGAACCTTACGAGACCGATTATCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGCAGGTCGCCAAGGTCCCGAACAAG
CTGCACTCGCGCATCGCCGCGCGCCTGAAGGTCATGGCGCAGCTCGACATCGCCGAGAAGCGCGTGCCGCAGGACGGCCG
CATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGCATGAGCACCTTGCCGACCCTGTTCGGCGAGAAGATCG
TGTTGCGTATCCTCGATGGCAGCGCGGCGAAGCTCGGTATCGAAAAGCTCGGCTACGAGGATTACCAGAAGGAATTGTTC
ATCAATGCCGTGGCCAAGCCCTACGGCATGGTGCTCGTGACCGGTCCGACCGGCTCGGGCAAGACGGTCTCACTGTACAC
CGCCTTGAACATCCTTAACGACGAGCAGCGCAACATCTCCACGGTCGAAGACCCGGTCGAAATCCGCGTACCCGGCATCA
ACCAGGTGCAGATGAACGTCAAACGCGGCATGACCTTCGCCGCGGCGCTGCGCAGCTTCCTGCGTCAGGATCCGGACGTG
ATCATGGTCGGCGAAATCCGCGACCTCGAAACCGCCGAGATCGCGATCAAGGCCGCCCAGACCGGCCATATGGTGCTGTC
GACCCTGCACACCAACGATGCGCCGCAGACCATCGCCCGCCTGATGAACATGGGCGTCGCGCCCTACAACATCACTTCCT
CGGTGACCCTGGTCATCGCCCAGCGCCTCGCCCGCCGTCTGCATGACTGCAAGCGCGAGGTGCATCTGCCCGAACACGCT
CTGCTCGCCGAAGGCTTCACCGCGGAAGAGATCGCGTCCGGGTTCAAGTTGTACGAGCCGGCGGGATGCCCGGACTGCAC
CGAAGGCTACAAGGGACGTACCGGCATCTACCAGGTCATGCCCATGACCGACGAAATCCAGGCCATCGTGCTGGAGGGCG
GCAACGCGATGCAGATCGCGGCCGCCGCCATCAAGTCCGGCGTCAACGACTTGCGCCGCTCCGCACTGATCAAGGTGATG
AATGGCGTCACCGGCCTGGCCGAAATCAACCGCGTAACCAAGGACTAA

Domains

Predicted by InterproScan.

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

(48-152)

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

55.088

99.13

0.546
  pilB Acinetobacter baumannii D1279779

54.246

100

0.544
  pilB Legionella pneumophila strain ERS1305867

50.963

99.304

0.506
  pilB Vibrio cholerae strain A1552

52.335

89.391

0.468
  pilF Neisseria gonorrhoeae MS11

52.227

85.913

0.449
  pilB Vibrio parahaemolyticus RIMD 2210633

49.425

90.783

0.449
  pilB Vibrio campbellii strain DS40M4

51.125

85.043

0.435

Multiple sequence alignment