Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   H4W19_RS09335 Genome accession   NZ_CP060028
Coordinates   1961453..1963195 (+) Length   580 a.a.
NCBI ID   WP_185896927.1    Uniprot ID   -
Organism   Pseudoxanthomonas mexicana strain GTZY     
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 1958824..1968352 1961453..1963195 within 0


Gene organization within MGE regions


Location: 1958824..1968352
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  H4W19_RS09320 (H4W19_09320) - 1958824..1959798 (+) 975 WP_185896924.1 glycosyltransferase family 2 protein -
  H4W19_RS09325 (H4W19_09325) - 1959795..1960403 (+) 609 WP_185896925.1 class I SAM-dependent methyltransferase -
  H4W19_RS09330 (H4W19_09330) - 1960508..1961302 (+) 795 WP_345776409.1 hypothetical protein -
  H4W19_RS09335 (H4W19_09335) pilB 1961453..1963195 (+) 1743 WP_185896927.1 type IV-A pilus assembly ATPase PilB Machinery gene
  H4W19_RS09340 (H4W19_09340) pilC 1963521..1964675 (+) 1155 WP_313770793.1 type II secretion system F family protein Machinery gene
  H4W19_RS09345 (H4W19_09345) pilD 1964685..1965548 (+) 864 WP_185896929.1 A24 family peptidase Machinery gene
  H4W19_RS09350 (H4W19_09350) coaE 1965582..1966199 (+) 618 WP_185896930.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 580 a.a.        Molecular weight: 62762.14 Da        Isoelectric Point: 6.1466

>NTDB_id=473417 H4W19_RS09335 WP_185896927.1 1961453..1963195(+) (pilB) [Pseudoxanthomonas mexicana strain GTZY]
MNAVASPTANLVGITGIARRLVQDGAMDEATARSAMANASEAKVPLAQWVAEKRLVAPAHLAAANAIEFGMPLIDVTAFD
PAHHAVKLVSEELIQKHQVLPLFKRGGKLFVGTSNPTQTAALTEIQFHTNLVVEPVLVDDDQLRRTLDQWLNAASNLSGS
FGGDDDDGLDNLEVGTDEDMGGGADSAVDAKGDDTPVVKFVNKVLVDAIKRGASDIHFEPYETDYRVRLRIDGILKQVAK
APVKLSSRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPDQ
QKLFEEAIQKPYGMVLVTGPTGSGKTVSLYTALGILNDEVRNISTVEDPVEIRLPGVNQVQQNTKRGMTFAAALRSFLRQ
DPDIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCPKCKKPVE
LPKPALLAEGFTEAEIDAGFTLYEAVGCDECTEGYKGRTGIYQVMPMSDDIQAIVLEGGNAMQIAAVARKAGIRDLRQSA
LMKVRNGVTSLAEINRVTKD

Nucleotide


Download         Length: 1743 bp        

>NTDB_id=473417 H4W19_RS09335 WP_185896927.1 1961453..1963195(+) (pilB) [Pseudoxanthomonas mexicana strain GTZY]
ATGAATGCAGTCGCCAGCCCCACCGCCAATCTCGTCGGCATTACCGGCATTGCCCGCCGCCTGGTTCAGGATGGCGCGAT
GGATGAAGCCACTGCCCGCAGCGCGATGGCCAACGCCTCCGAGGCCAAGGTGCCCTTGGCGCAGTGGGTGGCGGAGAAGC
GGCTGGTGGCCCCGGCCCACCTGGCCGCCGCCAACGCCATCGAATTCGGCATGCCGCTGATCGATGTCACTGCGTTCGAC
CCCGCCCACCACGCCGTCAAGCTGGTCAGCGAGGAACTGATCCAGAAGCACCAGGTGCTGCCGCTGTTCAAGCGCGGCGG
CAAGCTGTTCGTCGGCACCAGCAATCCCACCCAGACCGCGGCCCTGACCGAAATCCAGTTCCACACCAACCTGGTGGTGG
AGCCCGTGCTGGTCGACGATGACCAGCTGCGTCGCACCCTGGACCAGTGGCTCAACGCCGCCAGCAACCTGTCCGGCAGC
TTCGGCGGCGACGACGACGACGGGTTGGACAACCTGGAGGTGGGTACCGATGAGGACATGGGCGGTGGCGCCGACAGCGC
CGTCGACGCCAAGGGCGACGACACGCCGGTGGTCAAGTTCGTCAACAAGGTGCTGGTGGACGCCATCAAGCGCGGCGCCT
CGGACATCCACTTCGAGCCCTACGAGACCGACTACCGCGTGCGCCTGCGCATCGACGGCATCCTCAAGCAGGTGGCCAAG
GCGCCGGTGAAGCTGAGCTCGCGCATCGCCGCGCGCCTGAAGGTGATGTCGCAGCTTGACATCGCCGAGAAGCGCGTGCC
GCAGGACGGCCGCATCAAGCTGAACCTGTCCAAGACCAAGCAGATCGACTTCCGCGTCAGCACCCTGCCCACGCTGTTCG
GCGAGAAGATCGTGCTGCGCATCTTGGACGGCAGCGCCGCCAAGCTGGGCATCGACAAGCTGGGTTACGAGCCGGACCAG
CAGAAGCTGTTCGAAGAGGCCATCCAGAAGCCCTACGGCATGGTGCTGGTCACCGGCCCCACCGGCTCGGGCAAGACCGT
GTCGCTGTACACGGCGCTGGGCATCCTGAACGACGAGGTCCGCAACATCTCCACCGTCGAGGACCCGGTGGAAATCCGCC
TGCCCGGCGTGAACCAGGTGCAGCAGAACACCAAGCGCGGCATGACCTTCGCCGCGGCCCTGCGCAGCTTCCTGCGCCAG
GACCCCGACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGAGATCGCCATCAAGGCCGCCCAGACCGGCCA
CATGGTGCTGTCCACCCTGCACACCAACGACGCCCCGCAGACCATCGCGCGCCTGATGAACATGGGCATCGCCCCGTACA
ACATCACCAGCTCGGTGACCCTGGTGATCGCCCAGCGCCTGGCGCGGCGGCTGTGCCCCAAGTGCAAGAAGCCGGTCGAA
CTGCCCAAGCCCGCCCTGCTGGCCGAAGGCTTCACCGAGGCCGAGATCGACGCCGGCTTCACCCTGTACGAGGCGGTCGG
CTGCGACGAGTGCACCGAGGGCTACAAGGGCCGGACCGGCATCTATCAGGTCATGCCGATGTCCGACGACATCCAGGCCA
TCGTGCTGGAAGGCGGCAACGCCATGCAGATCGCCGCCGTCGCCCGGAAGGCCGGCATCCGCGACCTGCGCCAGTCCGCG
CTGATGAAAGTCCGCAACGGCGTGACCAGCCTGGCCGAGATCAACCGCGTCACCAAGGACTGA

Domains

Predicted by InterproScan.

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

(52-151)

Type II/IV secretion system protein (T2SSE)

(203-470)


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 baumannii D1279779

56.338

97.931

0.552
  pilB Acinetobacter baylyi ADP1

54.561

100

0.547
  pilB Legionella pneumophila strain ERS1305867

51.937

97.931

0.509
  pilF Neisseria gonorrhoeae MS11

49.649

98.276

0.488
  pilB Vibrio cholerae strain A1552

52.51

89.31

0.469
  pilB Vibrio parahaemolyticus RIMD 2210633

46.181

97.069

0.448
  pilB Vibrio campbellii strain DS40M4

45.439

98.276

0.447
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.409

100

0.374