Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   U0024_RS04180 Genome accession   NZ_CP139994
Coordinates   917758..919500 (-) Length   580 a.a.
NCBI ID   WP_304352033.1    Uniprot ID   -
Organism   Comamonas testosteroni strain HAMBI_0403     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 912758..924500
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U0024_RS04150 (U0024_04150) - 913382..913852 (+) 471 WP_304352028.1 NUDIX domain-containing protein -
  U0024_RS04155 (U0024_04155) - 913865..914074 (-) 210 WP_034357520.1 DNA gyrase inhibitor YacG -
  U0024_RS04160 (U0024_04160) zapD 914174..914929 (-) 756 WP_304352029.1 cell division protein ZapD -
  U0024_RS04165 (U0024_04165) coaE 915017..915643 (-) 627 WP_304352030.1 dephospho-CoA kinase -
  U0024_RS04170 (U0024_04170) - 915647..916516 (-) 870 WP_304352031.1 prepilin peptidase -
  U0024_RS04175 (U0024_04175) pilC 916516..917733 (-) 1218 WP_304352032.1 type II secretion system F family protein Machinery gene
  U0024_RS04180 (U0024_04180) pilB 917758..919500 (-) 1743 WP_304352033.1 type IV-A pilus assembly ATPase PilB Machinery gene
  U0024_RS04190 (U0024_04190) - 919755..920684 (-) 930 WP_302092186.1 polyprenyl synthetase family protein -
  U0024_RS04195 (U0024_04195) rplU 921050..921361 (+) 312 WP_003058536.1 50S ribosomal protein L21 -
  U0024_RS04200 (U0024_04200) rpmA 921378..921635 (+) 258 WP_003058534.1 50S ribosomal protein L27 -
  U0024_RS04205 (U0024_04205) cgtA 921792..922907 (+) 1116 WP_302092185.1 Obg family GTPase CgtA -
  U0024_RS04210 (U0024_04210) proB 923018..924157 (+) 1140 WP_003073991.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 580 a.a.        Molecular weight: 63200.44 Da        Isoelectric Point: 5.1608

>NTDB_id=912301 U0024_RS04180 WP_304352033.1 917758..919500(-) (pilB) [Comamonas testosteroni strain HAMBI_0403]
MAAADNLQKNAPAPIAIPGLGRALISAGKVSQQAAENAAKKAATGKTPFITELSQSGEISALEIAETISMMFSTPLLDLN
AIDVQQLPRELLDPKISNAYRVLAISKRGNRLTIATADPTQQEAAEQIKFTTQLLVDWVVVEADKLQKLVEQTGKSVSES
LDSYSSSGDFDFDDVKIEDAPEEKDNTVGAEVEDAPVVKFLHKMLLDAFNMRASDLHFEPYEHNYRVRFRIDGELREIAS
PPIAIKDKLASRIKVISRLDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSAKMGIDALGYEPEE
KERLLKAINRPYGMILVTGPTGSGKTVSLYTCLNLLNQPGVNIATAEDPSEINMPGVNQVNVNEKAGLTFAAALKSFLRQ
DPDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCAQCKEPAD
IPHEALLEAGYDEAELNGSWVSYKPVGCPACNNGYKGRVGIYQVMPISEEIQRIILRDGSALEIAEQAKAEGVRSLRGSG
LHKVKLGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1743 bp        

>NTDB_id=912301 U0024_RS04180 WP_304352033.1 917758..919500(-) (pilB) [Comamonas testosteroni strain HAMBI_0403]
ATGGCCGCTGCCGACAATCTGCAAAAGAACGCCCCTGCGCCCATCGCCATCCCTGGTCTAGGCAGAGCTCTGATTTCTGC
AGGAAAGGTTTCGCAGCAAGCCGCCGAGAACGCTGCCAAGAAAGCCGCCACAGGCAAGACCCCGTTCATTACCGAGCTCA
GCCAGTCTGGCGAAATCAGCGCGCTGGAAATTGCCGAAACCATTTCCATGATGTTCAGCACTCCGCTGCTGGACCTCAAC
GCCATCGACGTCCAGCAACTTCCGCGCGAACTGCTGGACCCGAAAATCAGCAACGCCTATCGCGTACTGGCAATCAGCAA
GCGCGGCAATCGGCTCACCATCGCCACGGCAGACCCCACTCAGCAGGAAGCTGCCGAACAGATCAAATTCACGACTCAGT
TACTGGTGGACTGGGTGGTTGTCGAGGCCGACAAGCTGCAAAAGCTCGTCGAGCAGACCGGCAAGAGCGTCAGCGAATCG
CTGGACTCCTACTCCAGCTCCGGAGACTTTGACTTTGACGACGTCAAGATCGAGGATGCCCCCGAGGAAAAAGACAATAC
CGTCGGCGCCGAGGTCGAGGATGCACCGGTCGTCAAGTTTTTGCACAAGATGCTGCTGGACGCCTTCAATATGCGCGCAT
CCGACTTGCATTTCGAGCCCTACGAACACAATTACCGCGTGCGCTTTCGCATCGACGGCGAACTGCGCGAGATAGCCTCT
CCTCCTATCGCGATCAAGGACAAGCTGGCTTCGCGCATCAAGGTGATCTCGCGCCTGGACATCTCGGAGAAACGCGTTCC
GCAGGACGGCCGCATGAAGCTCAAGGTCGGCCCCGACCGCGTCATCGACTTTCGTGTCAGCACCTTGCCCACGCTGTTTG
GCGAGAAGATCGTGATCCGTATCCTGGACCCGAGCTCGGCCAAGATGGGCATCGACGCCCTAGGCTACGAGCCCGAGGAA
AAAGAGCGCCTGCTCAAGGCCATCAACCGTCCCTACGGGATGATTCTGGTCACCGGCCCCACGGGCTCGGGCAAGACCGT
GTCGCTCTACACCTGCCTGAACCTGCTCAACCAGCCGGGCGTGAACATTGCCACCGCCGAAGACCCCTCCGAAATCAACA
TGCCCGGCGTCAACCAGGTCAATGTGAACGAGAAGGCCGGCCTGACCTTTGCTGCTGCGCTCAAATCCTTTCTGCGCCAG
GACCCGGACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGACATCTCGATCAAGGCCGCCCAGACCGGGCA
CCTGGTGCTGTCCACGCTGCACACCAATGACGCTCCGACCACGCTGACGCGCATGCGCAATATGGGCATCGCCCCTTTCA
ATATTGCCTCCAGCGTGATTTTGATCACCGCCCAGCGTCTGGCGCGACGCCTGTGCGCGCAGTGCAAGGAGCCTGCCGAC
ATACCGCATGAGGCCCTGCTCGAAGCGGGCTACGATGAAGCAGAACTCAACGGCAGCTGGGTCAGCTACAAGCCTGTCGG
CTGCCCGGCCTGCAACAACGGCTACAAGGGACGTGTCGGTATCTATCAGGTGATGCCCATCAGCGAAGAAATTCAACGCA
TCATCTTGCGTGACGGCAGCGCTCTGGAGATTGCCGAACAGGCAAAGGCCGAAGGAGTACGCTCTCTGCGCGGCTCGGGC
CTGCATAAAGTCAAGTTGGGTCTGACCTCACTCGAAGAAGTGCTGGCTGTCACCAACGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(203-470)

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

(55-153)


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

54.435

99.138

0.54
  pilB Acinetobacter baumannii D1279779

55.203

97.759

0.54
  pilF Neisseria gonorrhoeae MS11

52.65

97.586

0.514
  pilB Legionella pneumophila strain ERS1305867

50.883

97.586

0.497
  pilB Vibrio cholerae strain A1552

47.436

94.138

0.447
  pilB Vibrio campbellii strain DS40M4

43.85

96.724

0.424
  pilB Vibrio parahaemolyticus RIMD 2210633

46.008

90.69

0.417
  pilF Thermus thermophilus HB27

38.542

99.31

0.383
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.596

98.276

0.379