Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LZ683_RS04525 Genome accession   NZ_CP090445
Coordinates   987004..988746 (-) Length   580 a.a.
NCBI ID   WP_182285741.1    Uniprot ID   -
Organism   Comamonas testosteroni strain X13     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 982004..993746
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LZ683_RS04495 (LZ683_04485) - 982518..982988 (+) 471 WP_149354961.1 NUDIX domain-containing protein -
  LZ683_RS04500 (LZ683_04490) - 983105..983314 (-) 210 WP_034357520.1 DNA gyrase inhibitor YacG -
  LZ683_RS04505 (LZ683_04495) zapD 983414..984169 (-) 756 WP_275054024.1 cell division protein ZapD -
  LZ683_RS04510 (LZ683_04500) coaE 984257..984883 (-) 627 WP_182285738.1 dephospho-CoA kinase -
  LZ683_RS04515 (LZ683_04505) - 984887..985762 (-) 876 WP_256495879.1 A24 family peptidase -
  LZ683_RS04520 (LZ683_04510) pilC 985762..986979 (-) 1218 WP_182285740.1 type II secretion system F family protein Machinery gene
  LZ683_RS04525 (LZ683_04515) pilB 987004..988746 (-) 1743 WP_182285741.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LZ683_RS04535 (LZ683_04525) - 989002..989931 (-) 930 WP_182285742.1 polyprenyl synthetase family protein -
  LZ683_RS04540 (LZ683_04530) rplU 990288..990599 (+) 312 WP_003058536.1 50S ribosomal protein L21 -
  LZ683_RS04545 (LZ683_04535) rpmA 990616..990873 (+) 258 WP_003058534.1 50S ribosomal protein L27 -
  LZ683_RS04550 (LZ683_04540) cgtA 991030..992145 (+) 1116 WP_182285743.1 Obg family GTPase CgtA -
  LZ683_RS04555 (LZ683_04545) proB 992256..993395 (+) 1140 WP_034381631.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 580 a.a.        Molecular weight: 63131.38 Da        Isoelectric Point: 5.1598

>NTDB_id=642491 LZ683_RS04525 WP_182285741.1 987004..988746(-) (pilB) [Comamonas testosteroni strain X13]
MAAADNLQKNAPAPIAIPGIGRALISAGKVSQQAAENAAKKAATGKTPFITELSQSGEISALEIAETISMMFSTPLLDLN
AIDVQQLPRELLDPKISNAYRVLALGKRGNRLTIATADPTQQEAAEQIKFTTQLLVDWVVVEADKLQKLVEQTGKSASES
LDSYSSSGDFDFDDVKIEDAPEEKDNAIGAEVEDAPVVKFLHKMLLDAFNMRASDLHFEPYEHNYRVRFRIDGELREIAS
PPIAIKDKLASRIKVISRLDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSAKMGIDALGYEPEE
KERLLKAINRPYGMILVTGPTGSGKTVSLYTCLNLLNQPGVNIATAEDPSEINMPGVNQVNVNEKAGLTFAAALKSFLRQ
DPDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCAQCKEPAD
IPRDALIEAGYDEAELNGSWVSYKPVGCPACNNGYKGRVGIYQVMPISEEIQRIILRDGSALEIAAQAKAEGVRSLRDSG
LHKVKLGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1743 bp        

>NTDB_id=642491 LZ683_RS04525 WP_182285741.1 987004..988746(-) (pilB) [Comamonas testosteroni strain X13]
ATGGCTGCTGCCGACAATCTGCAAAAGAACGCCCCTGCGCCCATTGCCATCCCTGGTATAGGCAGAGCCCTGATTTCTGC
AGGAAAGGTTTCGCAGCAAGCCGCCGAGAACGCAGCCAAGAAAGCCGCCACAGGCAAGACCCCGTTCATTACCGAGCTCA
GCCAGTCTGGCGAAATCAGCGCGCTGGAAATTGCCGAAACCATTTCCATGATGTTCAGCACTCCGCTGCTGGACCTCAAC
GCCATCGACGTCCAGCAACTTCCGCGCGAACTGCTGGACCCGAAAATCAGCAACGCCTATCGCGTGCTGGCACTCGGCAA
GCGCGGCAACCGCCTCACCATTGCCACGGCAGACCCCACTCAGCAGGAAGCTGCCGAACAGATCAAATTCACGACCCAGT
TGCTGGTGGACTGGGTGGTTGTCGAGGCCGACAAGCTGCAAAAGCTCGTCGAGCAGACCGGCAAGAGCGCCAGCGAATCA
CTGGACTCCTATTCCAGTTCCGGGGACTTTGACTTTGACGACGTCAAGATCGAGGATGCCCCCGAGGAAAAAGACAATGC
CATCGGCGCCGAGGTCGAGGATGCGCCGGTCGTCAAGTTTCTGCACAAGATGCTGCTGGACGCCTTCAATATGCGCGCAT
CCGACCTGCATTTCGAGCCCTACGAACACAATTACCGCGTGCGCTTTCGCATCGACGGCGAGCTGCGCGAGATAGCCTCT
CCTCCTATCGCGATCAAGGACAAGCTGGCCTCGCGCATCAAGGTGATCTCGCGCCTGGACATCTCGGAGAAACGCGTTCC
GCAGGACGGCCGCATGAAGCTCAAGGTCGGCCCCGACCGCGTCATCGACTTTCGTGTCAGCACCTTGCCCACGCTGTTTG
GCGAGAAGATCGTGATCCGTATCCTGGACCCAAGCTCGGCCAAGATGGGCATCGACGCCCTGGGCTACGAGCCCGAGGAA
AAAGAGCGCCTGCTCAAGGCCATCAACCGCCCCTACGGCATGATTCTGGTCACCGGCCCCACGGGCTCGGGCAAGACCGT
GTCGCTCTACACCTGCCTGAACCTGCTCAACCAGCCGGGCGTGAACATTGCCACCGCCGAAGACCCCTCCGAAATCAACA
TGCCCGGCGTCAACCAGGTCAATGTGAACGAGAAGGCCGGCCTGACCTTTGCCGCTGCGCTCAAATCCTTTCTGCGCCAG
GACCCGGACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGACATCTCGATCAAGGCCGCCCAGACCGGGCA
CCTGGTGCTGTCCACGCTGCACACCAATGACGCTCCGACCACGCTGACGCGCATGCGCAATATGGGCATCGCCCCTTTCA
ATATTGCCTCCAGCGTGATTTTGATCACCGCCCAGCGTCTGGCTCGACGCCTGTGCGCGCAGTGCAAGGAGCCTGCCGAC
ATACCGCGCGACGCCCTGATCGAGGCGGGCTACGATGAAGCCGAACTCAACGGCAGCTGGGTCAGCTACAAGCCTGTCGG
CTGCCCGGCCTGCAACAATGGCTACAAGGGACGTGTCGGTATTTATCAGGTGATGCCCATCAGCGAAGAAATTCAACGCA
TCATCTTGCGTGACGGCAGCGCCCTGGAGATTGCCGCACAGGCCAAGGCCGAAGGAGTACGCTCTCTGCGCGACTCGGGC
CTGCATAAAGTCAAGCTGGGTCTGACCTCACTCGAAGAAGTGCTGGCGGTCACCAACGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(203-470)

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

(55-156)


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

54.482

98.103

0.534
  pilF Neisseria gonorrhoeae MS11

52.473

97.586

0.512
  pilB Legionella pneumophila strain ERS1305867

51.413

97.586

0.502
  pilB Vibrio cholerae strain A1552

47.07

94.138

0.443
  pilB Vibrio parahaemolyticus RIMD 2210633

46.008

90.69

0.417
  pilB Vibrio campbellii strain DS40M4

46.095

90.517

0.417
  pilF Thermus thermophilus HB27

37.308

100

0.378
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.07

98.276

0.374