Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   F0Q02_RS03935 Genome accession   NZ_CP043573
Coordinates   865828..867570 (-) Length   580 a.a.
NCBI ID   WP_003058542.1    Uniprot ID   -
Organism   Comamonas testosteroni strain R5-28     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 860828..872570
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  F0Q02_RS03905 - 861348..861818 (+) 471 WP_019043048.1 NUDIX domain-containing protein -
  F0Q02_RS03910 - 861934..862146 (-) 213 WP_003058551.1 DNA gyrase inhibitor YacG -
  F0Q02_RS03915 zapD 862245..863000 (-) 756 WP_003058549.1 cell division protein ZapD -
  F0Q02_RS03920 coaE 863088..863714 (-) 627 WP_003058547.1 dephospho-CoA kinase -
  F0Q02_RS03925 - 863718..864587 (-) 870 WP_003058545.1 prepilin peptidase -
  F0Q02_RS03930 pilC 864587..865804 (-) 1218 WP_003058543.1 type II secretion system F family protein Machinery gene
  F0Q02_RS03935 pilB 865828..867570 (-) 1743 WP_003058542.1 type IV-A pilus assembly ATPase PilB Machinery gene
  F0Q02_RS03945 - 867825..868754 (-) 930 WP_003058538.1 polyprenyl synthetase family protein -
  F0Q02_RS03950 rplU 869097..869408 (+) 312 WP_003058536.1 50S ribosomal protein L21 -
  F0Q02_RS03955 rpmA 869425..869682 (+) 258 WP_003058534.1 50S ribosomal protein L27 -
  F0Q02_RS03960 cgtA 869839..870954 (+) 1116 WP_003058532.1 Obg family GTPase CgtA -
  F0Q02_RS03965 proB 871065..872204 (+) 1140 WP_003058530.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 580 a.a.        Molecular weight: 63143.34 Da        Isoelectric Point: 5.0878

>NTDB_id=385228 F0Q02_RS03935 WP_003058542.1 865828..867570(-) (pilB) [Comamonas testosteroni strain R5-28]
MAAADNLQKNAPAPIAIPGLGRALISAGKVSQQAAENAAKKAATGKTPFITELSQSGEISALEIAETISMMFSTPLLDLN
AIDAQQLPRELLDPKISNAYRVLALSKRGNRLTIATADPTQQEAAEQIKFTTQLLVDWVVVEADKLQKLVEQTGKSVSES
LDSYSSSGDFDFDDVKIEDAPEEKDNAVGAEVEDAPVVKFLHKMLLDAFNMRASDLHFEPYEHNYRVRFRIDGELREIAS
PPIAIKDKLASRIKVISRLDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSAKMGIDALGYEPEE
KERLLKAINRPYGMILVTGPTGSGKTVSLYTCLNLLNQPGVNIATAEDPSEINMPGVNQVNVNEKAGLTFAAALKSFLRQ
DPDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCAQCKEPAD
IPHDALIEAGYAEEELDGSWVSYKPVGCPACNNGYKGRVGIYQVMPISEEIQRIILRDGSALEIAEQAKAEGVRSLRGSG
LHKVKLGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1743 bp        

>NTDB_id=385228 F0Q02_RS03935 WP_003058542.1 865828..867570(-) (pilB) [Comamonas testosteroni strain R5-28]
ATGGCCGCTGCCGACAATCTGCAAAAGAACGCCCCTGCGCCCATTGCCATCCCTGGTCTAGGCAGAGCCCTGATTTCCGC
CGGCAAGGTCTCGCAGCAAGCAGCCGAAAACGCAGCCAAGAAAGCCGCCACAGGCAAGACTCCATTCATCACCGAACTGA
GCCAGTCCGGCGAAATCAGCGCACTGGAAATTGCCGAAACCATCTCCATGATGTTCAGCACACCGTTGCTGGACCTCAAT
GCCATCGACGCCCAGCAACTGCCACGCGAGCTGCTGGACCCGAAGATCAGCAACGCCTACCGCGTGCTGGCGCTCAGCAA
GCGCGGCAACCGGCTCACCATTGCCACGGCAGACCCCACGCAGCAGGAAGCGGCCGAGCAGATCAAGTTCACAACCCAGT
TGCTGGTGGACTGGGTAGTTGTCGAGGCCGACAAGCTGCAAAAACTGGTCGAGCAGACCGGCAAGAGCGTCAGCGAGTCT
CTGGACTCCTATTCCAGCTCCGGAGACTTTGACTTCGACGACGTCAAGATCGAGGATGCCCCCGAGGAAAAAGACAATGC
CGTCGGCGCCGAGGTCGAGGATGCTCCGGTCGTCAAGTTTCTGCACAAGATGCTGCTGGACGCCTTCAATATGCGCGCGT
CCGACTTGCACTTCGAGCCCTACGAACACAATTACCGCGTGCGCTTTCGTATCGACGGCGAGCTGCGCGAGATCGCCTCG
CCCCCGATTGCGATCAAGGACAAGCTGGCTTCCCGCATCAAGGTGATCTCGCGCCTGGACATCTCGGAGAAGCGCGTTCC
GCAGGACGGCCGCATGAAGCTCAAGGTCGGCCCCGACCGCGTCATCGACTTTCGTGTCAGCACCTTGCCCACGCTGTTTG
GCGAGAAGATCGTGATCCGTATTCTGGACCCGAGCTCGGCCAAGATGGGCATCGATGCCCTCGGCTACGAACCCGAGGAA
AAAGAGCGCCTGCTCAAGGCCATCAACCGCCCCTACGGCATGATCCTGGTCACCGGCCCCACGGGCTCGGGCAAGACCGT
GTCGCTCTACACCTGCCTGAACCTGCTCAACCAGCCGGGCGTGAACATCGCCACCGCCGAGGACCCTTCCGAAATCAACA
TGCCTGGCGTCAATCAGGTCAATGTGAACGAGAAGGCCGGCCTGACCTTTGCCGCTGCGCTCAAATCCTTTCTGCGTCAG
GACCCGGACATCATCATGGTCGGTGAAATCCGTGACCTGGAAACCGCCGACATCTCGATCAAGGCCGCCCAGACCGGGCA
CCTGGTGCTGTCCACGCTGCACACCAATGATGCTCCGACCACACTGACGCGCATGCGCAATATGGGCATCGCCCCTTTCA
ATATTGCTTCCAGCGTGATTCTGATCACCGCCCAGCGCCTGGCACGACGCCTGTGTGCTCAGTGCAAGGAACCCGCCGAC
ATACCGCACGACGCCCTGATCGAAGCCGGCTACGCTGAAGAGGAGCTCGACGGCAGCTGGGTCAGCTACAAGCCTGTGGG
CTGCCCTGCCTGCAACAACGGCTACAAGGGACGTGTCGGTATCTATCAGGTGATGCCCATCAGCGAGGAGATTCAGCGCA
TCATCCTGCGTGACGGCAGTGCGCTGGAAATTGCTGAACAAGCCAAGGCCGAAGGAGTACGCTCTCTGCGCGGCTCGGGC
CTGCATAAAGTCAAGCTGGGTCTGACCTCACTCGAAGAAGTGCTGGCGGTCACCAACGAGTAA

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

54.609

99.138

0.541
  pilB Acinetobacter baumannii D1279779

55.203

97.759

0.54
  pilF Neisseria gonorrhoeae MS11

52.827

97.586

0.516
  pilB Legionella pneumophila strain ERS1305867

50.883

97.586

0.497
  pilB Vibrio cholerae strain A1552

47.08

94.483

0.445
  pilB Vibrio campbellii strain DS40M4

44.207

96.724

0.428
  pilB Vibrio parahaemolyticus RIMD 2210633

46.008

90.69

0.417
  pilF Thermus thermophilus HB27

38.194

99.31

0.379
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.421

98.276

0.378

Multiple sequence alignment