Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   Cthiooxydans_RS04005 Genome accession   NZ_AP025193
Coordinates   877701..879443 (-) Length   580 a.a.
NCBI ID   WP_039049614.1    Uniprot ID   -
Organism   Comamonas thiooxydans strain NR4028     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 872701..884443
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Cthiooxydans_RS03975 (Cthiooxydans_07580) - 873216..873686 (+) 471 WP_052052682.1 NUDIX domain-containing protein -
  Cthiooxydans_RS03980 (Cthiooxydans_07590) - 873804..874013 (-) 210 WP_039049611.1 DNA gyrase inhibitor YacG -
  Cthiooxydans_RS03985 (Cthiooxydans_07600) zapD 874117..874872 (-) 756 WP_039049612.1 cell division protein ZapD -
  Cthiooxydans_RS03990 (Cthiooxydans_07610) coaE 874960..875586 (-) 627 WP_229228151.1 dephospho-CoA kinase -
  Cthiooxydans_RS03995 (Cthiooxydans_07620) - 875590..876459 (-) 870 WP_003062192.1 prepilin peptidase -
  Cthiooxydans_RS04000 (Cthiooxydans_07630) pilC 876459..877676 (-) 1218 WP_003062193.1 type II secretion system F family protein Machinery gene
  Cthiooxydans_RS04005 (Cthiooxydans_07640) pilB 877701..879443 (-) 1743 WP_039049614.1 type IV-A pilus assembly ATPase PilB Machinery gene
  Cthiooxydans_RS04015 (Cthiooxydans_07650) - 879697..880626 (-) 930 WP_003062198.1 polyprenyl synthetase family protein -
  Cthiooxydans_RS04020 (Cthiooxydans_07660) rplU 880971..881282 (+) 312 WP_003058536.1 50S ribosomal protein L21 -
  Cthiooxydans_RS04025 (Cthiooxydans_07670) rpmA 881299..881556 (+) 258 WP_003058534.1 50S ribosomal protein L27 -
  Cthiooxydans_RS04030 (Cthiooxydans_07680) cgtA 881713..882828 (+) 1116 WP_039049615.1 Obg family GTPase CgtA -
  Cthiooxydans_RS04035 (Cthiooxydans_07690) proB 882939..884078 (+) 1140 WP_012837105.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 580 a.a.        Molecular weight: 63074.28 Da        Isoelectric Point: 5.1537

>NTDB_id=90401 Cthiooxydans_RS04005 WP_039049614.1 877701..879443(-) (pilB) [Comamonas thiooxydans strain NR4028]
MAAADTLQKNTPAPIAIPGLGRALISAGKVSQQAAENAAKKAATGKTPFITELSQSGEISALEIAETISMMFSTPLLDLN
AIDAQQLPRELLDPKISNAYRVLALSKRGNRLTIATADPTQQEAAEQIKFTTQLLVDWVVVEADKLQKLVEQTGKSVSES
LDSYSSSGDFDFDDVKIEDAPEEKDNAVGAEVEDAPVVKFLHKMLLDAFNMRASDLHFEPYEHNYRVRFRIDGELREIAS
PPIAIKDKLASRIKVISRLDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSAKMGIDALGYEPEE
KERLLKAINRPYGMILVTGPTGSGKTVSLYTCLNLLNQPGVNIATAEDPSEINMPGVNQVNVNEKAGLTFAAALKSFLRQ
DPDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCAQCKEPAD
IPHDALIDAGYDEAELDGSWVSYKPVGCPACNNGYKGRVGIYQVMPISEEIQRIILRDGSALEIAAQAKAEGVRSLRGSG
LHKVKLGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1743 bp        

>NTDB_id=90401 Cthiooxydans_RS04005 WP_039049614.1 877701..879443(-) (pilB) [Comamonas thiooxydans strain NR4028]
ATGGCTGCTGCCGACACTCTGCAAAAGAACACTCCTGCGCCCATTGCCATCCCAGGTTTGGGCAGGGCCCTGATTTCTGC
AGGAAAGGTTTCGCAGCAAGCCGCCGAGAACGCAGCCAAGAAAGCCGCCACAGGCAAGACCCCGTTCATCACCGAGCTCA
GCCAGTCTGGTGAAATCAGCGCACTGGAAATTGCCGAAACCATTTCCATGATGTTCAGCACTCCGCTGCTGGACCTCAAC
GCCATCGACGCCCAGCAACTTCCGCGCGAACTGCTGGACCCGAAAATCAGCAACGCCTATCGCGTGCTGGCACTCAGCAA
GCGCGGCAATCGGCTCACCATCGCCACGGCAGACCCTACTCAGCAGGAAGCTGCCGAACAGATCAAATTCACGACTCAGT
TGCTGGTGGACTGGGTGGTTGTCGAGGCCGACAAGCTGCAAAAGCTCGTCGAGCAGACCGGCAAGAGCGTCAGCGAATCC
CTGGACTCCTATTCCAGCTCAGGAGACTTCGACTTTGACGACGTCAAGATCGAGGATGCCCCCGAGGAAAAAGACAATGC
CGTCGGCGCCGAGGTCGAGGATGCGCCGGTCGTCAAGTTTCTGCACAAGATGCTGCTGGACGCCTTCAATATGCGCGCGT
CCGACTTGCACTTCGAGCCCTACGAACACAATTACCGCGTGCGCTTTCGCATCGACGGCGAGCTGCGCGAGATTGCCTCT
CCTCCTATCGCGATCAAGGACAAGCTGGCTTCGCGCATCAAGGTGATCTCGCGCCTGGACATCTCGGAGAAACGCGTTCC
GCAAGACGGCCGCATGAAGCTCAAGGTCGGCCCTGATCGCGTCATCGACTTTCGTGTCAGCACCTTGCCCACGCTGTTTG
GCGAAAAGATCGTGATCCGTATTCTGGACCCGAGCTCGGCCAAGATGGGCATCGATGCCCTCGGCTACGAACCCGAGGAA
AAAGAGCGCCTGCTCAAGGCCATCAACCGCCCCTACGGCATGATTTTGGTTACCGGCCCCACGGGCTCGGGCAAGACCGT
GTCGCTCTACACCTGCCTGAACCTGCTCAACCAGCCGGGCGTGAACATTGCCACCGCCGAAGACCCTTCCGAAATCAACA
TGCCCGGCGTCAACCAGGTGAATGTGAACGAGAAGGCCGGCCTGACTTTTGCCGCTGCGCTCAAGTCCTTTCTGCGCCAG
GACCCGGACATCATCATGGTCGGTGAAATCCGTGACCTGGAAACCGCCGACATCTCGATCAAGGCCGCCCAGACCGGGCA
CTTGGTGCTGTCCACGCTGCACACCAATGACGCTCCGACCACGCTGACGCGCATGCGCAATATGGGCATCGCCCCTTTCA
ATATTGCCTCCAGCGTGATCCTGATCACCGCCCAGCGTCTGGCGCGACGCCTGTGCGCGCAGTGCAAGGAGCCCGCCGAC
ATACCGCACGACGCCCTGATCGATGCCGGCTACGACGAAGCCGAACTCGACGGCAGTTGGGTCAGCTACAAGCCTGTCGG
CTGCCCTGCCTGCAACAACGGCTACAAGGGACGTGTCGGTATTTATCAGGTGATGCCCATCAGCGAAGAAATTCAGCGCA
TCATCCTGCGTGACGGCAGCGCCCTGGAGATTGCCGCACAGGCCAAGGCCGAGGGAGTACGCTCTCTGCGCGGCTCGGGC
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)

(55-153)


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

54.53

98.966

0.54
  pilB Acinetobacter baumannii D1279779

55.203

97.759

0.54
  pilF Neisseria gonorrhoeae MS11

52.473

97.586

0.512
  pilB Legionella pneumophila strain ERS1305867

50.883

97.586

0.497
  pilB Vibrio cholerae strain A1552

46.898

94.483

0.443
  pilB Vibrio campbellii strain DS40M4

44.029

96.724

0.426
  pilB Vibrio parahaemolyticus RIMD 2210633

46.008

90.69

0.417
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.421

98.276

0.378
  pilF Thermus thermophilus HB27

37.564

100

0.378

Multiple sequence alignment