Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HQM26_RS20350 Genome accession   NZ_CP053920
Coordinates   4398613..4400355 (-) Length   580 a.a.
NCBI ID   WP_039049614.1    Uniprot ID   -
Organism   Comamonas thiooxydans strain QYY     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4393613..4405355
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HQM26_RS20320 - 4394128..4394598 (+) 471 WP_054073469.1 NUDIX domain-containing protein -
  HQM26_RS20325 - 4394716..4394925 (-) 210 WP_039049611.1 DNA gyrase inhibitor YacG -
  HQM26_RS20330 zapD 4395029..4395784 (-) 756 WP_039049612.1 cell division protein ZapD -
  HQM26_RS20335 coaE 4395872..4396498 (-) 627 WP_039049613.1 dephospho-CoA kinase -
  HQM26_RS20340 - 4396502..4397371 (-) 870 WP_003062192.1 A24 family peptidase -
  HQM26_RS20345 pilC 4397371..4398588 (-) 1218 WP_003062193.1 type II secretion system F family protein Machinery gene
  HQM26_RS20350 pilB 4398613..4400355 (-) 1743 WP_039049614.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HQM26_RS20360 - 4400609..4401538 (-) 930 WP_003062198.1 polyprenyl synthetase family protein -
  HQM26_RS20365 rplU 4401884..4402195 (+) 312 WP_003058536.1 50S ribosomal protein L21 -
  HQM26_RS20370 rpmA 4402212..4402469 (+) 258 WP_003058534.1 50S ribosomal protein L27 -
  HQM26_RS20375 cgtA 4402626..4403741 (+) 1116 WP_003062200.1 Obg family GTPase CgtA -
  HQM26_RS20380 proB 4403852..4404991 (+) 1140 WP_003062203.1 glutamate 5-kinase -

Sequence

Protein


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

>NTDB_id=448959 HQM26_RS20350 WP_039049614.1 4398613..4400355(-) (pilB) [Comamonas thiooxydans strain QYY]
MAAADTLQKNTPAPIAIPGLGRALISAGKVSQQAAENAAKKAATGKTPFITELSQSGEISALEIAETISMMFSTPLLDLN
AIDAQQLPRELLDPKISNAYRVLALSKRGNRLTIATADPTQQEAAEQIKFTTQLLVDWVVVEADKLQKLVEQTGKSVSES
LDSYSSSGDFDFDDVKIEDAPEEKDNAVGAEVEDAPVVKFLHKMLLDAFNMRASDLHFEPYEHNYRVRFRIDGELREIAS
PPIAIKDKLASRIKVISRLDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSSAKMGIDALGYEPEE
KERLLKAINRPYGMILVTGPTGSGKTVSLYTCLNLLNQPGVNIATAEDPSEINMPGVNQVNVNEKAGLTFAAALKSFLRQ
DPDIIMVGEIRDLETADISIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCAQCKEPAD
IPHDALIDAGYDEAELDGSWVSYKPVGCPACNNGYKGRVGIYQVMPISEEIQRIILRDGSALEIAAQAKAEGVRSLRGSG
LHKVKLGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1743 bp        

>NTDB_id=448959 HQM26_RS20350 WP_039049614.1 4398613..4400355(-) (pilB) [Comamonas thiooxydans strain QYY]
ATGGCTGCTGCCGACACTCTGCAAAAGAACACTCCTGCGCCCATTGCCATCCCAGGTTTGGGCAGGGCCCTGATTTCTGC
AGGAAAGGTTTCGCAGCAAGCCGCCGAGAACGCAGCCAAGAAAGCCGCCACAGGCAAGACCCCGTTCATCACCGAGCTCA
GCCAGTCTGGTGAAATCAGCGCACTGGAAATTGCCGAAACCATTTCCATGATGTTCAGCACTCCGCTGCTGGACCTCAAC
GCCATCGACGCCCAGCAACTTCCGCGCGAACTGCTGGACCCGAAAATCAGCAACGCCTATCGCGTGCTGGCACTCAGCAA
GCGCGGCAATCGGCTCACCATCGCCACGGCAGACCCTACTCAGCAGGAAGCAGCCGAGCAGATCAAGTTCACGACTCAGT
TGCTGGTGGACTGGGTGGTTGTCGAGGCCGACAAGCTGCAAAAGCTCGTCGAGCAGACCGGCAAGAGCGTCAGCGAATCC
CTGGACTCCTATTCCAGCTCAGGAGACTTCGACTTTGACGACGTCAAGATCGAGGATGCCCCCGAGGAAAAAGACAATGC
CGTCGGCGCCGAGGTCGAGGATGCGCCGGTCGTCAAGTTTCTGCACAAGATGCTGCTGGACGCCTTCAATATGCGCGCGT
CCGACTTGCACTTCGAGCCCTACGAACACAATTACCGCGTGCGCTTTCGTATCGACGGCGAGCTGCGCGAGATTGCCTCT
CCCCCGATTGCAATCAAGGACAAGCTGGCTTCGCGCATCAAGGTGATCTCGCGCCTGGACATCTCGGAGAAACGCGTTCC
GCAAGACGGCCGCATGAAGCTCAAGGTCGGCCCTGATCGCGTCATCGACTTTCGTGTCAGCACCTTGCCCACGCTGTTTG
GTGAGAAGATCGTGATCCGTATTCTGGACCCGAGCTCGGCCAAGATGGGCATCGATGCCCTAGGCTACGAGCCCGAGGAG
AAAGAGCGCCTGCTCAAGGCCATCAACCGCCCCTACGGCATGATTCTGGTTACCGGCCCCACGGGCTCGGGCAAGACCGT
GTCGCTGTACACCTGCCTGAACCTGCTCAACCAGCCGGGCGTGAACATTGCCACCGCCGAAGACCCTTCCGAAATCAACA
TGCCCGGCGTCAACCAGGTGAATGTGAACGAGAAGGCCGGCCTGACCTTTGCCGCAGCGCTCAAGTCCTTTCTGCGCCAG
GATCCGGACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGACATCTCGATCAAGGCTGCCCAGACCGGGCA
CCTGGTGCTGTCCACGCTGCACACCAATGACGCTCCGACCACGCTGACGCGCATGCGCAATATGGGCATCGCCCCTTTCA
ATATTGCCTCCAGCGTGATTCTGATCACCGCCCAGCGTCTGGCACGACGCCTGTGCGCGCAGTGCAAGGAGCCCGCCGAC
ATACCGCACGACGCCCTGATCGATGCCGGCTACGACGAAGCCGAACTCGACGGCAGCTGGGTCAGCTACAAGCCTGTCGG
CTGCCCTGCCTGCAACAACGGCTACAAGGGACGTGTCGGTATTTATCAGGTGATGCCCATCAGCGAAGAGATTCAGCGCA
TCATCCTGCGTGACGGCAGCGCCCTGGAGATTGCCGCACAGGCCAAGGCCGAAGGAGTACGCTCTCTGCGCGGCTCGGGC
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