Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LAD35_RS17130 Genome accession   NZ_CP083451
Coordinates   3708103..3709839 (+) Length   578 a.a.
NCBI ID   WP_224150171.1    Uniprot ID   -
Organism   Comamonas odontotermitis strain WLL     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3703103..3714839
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LAD35_RS17105 (LAD35_17105) proB 3703607..3704746 (-) 1140 WP_224150169.1 glutamate 5-kinase -
  LAD35_RS17110 (LAD35_17110) cgtA 3704834..3705949 (-) 1116 WP_224150170.1 Obg family GTPase CgtA -
  LAD35_RS17115 (LAD35_17115) rpmA 3706142..3706402 (-) 261 WP_184707125.1 50S ribosomal protein L27 -
  LAD35_RS17120 (LAD35_17120) rplU 3706432..3706743 (-) 312 WP_184707123.1 50S ribosomal protein L21 -
  LAD35_RS17125 (LAD35_17125) - 3707012..3707941 (+) 930 WP_224152754.1 polyprenyl synthetase family protein -
  LAD35_RS17130 (LAD35_17130) pilB 3708103..3709839 (+) 1737 WP_224150171.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LAD35_RS17135 (LAD35_17135) pilC 3709860..3711080 (+) 1221 WP_224150172.1 type II secretion system F family protein Machinery gene
  LAD35_RS17140 (LAD35_17140) pilD 3711083..3711946 (+) 864 WP_224150173.1 A24 family peptidase Machinery gene
  LAD35_RS17145 (LAD35_17145) coaE 3711965..3712588 (+) 624 WP_224150174.1 dephospho-CoA kinase -
  LAD35_RS17150 (LAD35_17150) zapD 3712598..3713353 (+) 756 WP_224150175.1 cell division protein ZapD -
  LAD35_RS17155 (LAD35_17155) - 3713472..3713684 (+) 213 WP_396022756.1 DNA gyrase inhibitor YacG -
  LAD35_RS17160 (LAD35_17160) - 3713869..3714348 (-) 480 WP_224150176.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62608.75 Da        Isoelectric Point: 5.0010

>NTDB_id=605961 LAD35_RS17130 WP_224150171.1 3708103..3709839(+) (pilB) [Comamonas odontotermitis strain WLL]
MADNTTISPAPSIALPGIARALVASGKLPLAKAEALYASSIKSKNSFIGELVASGAVSGIDVATIISAVYSVPLIDLDAV
DADRLPSGLLDAKLASANKIVALAKRGNRLVVATADPTDHSVAEQIKFSTQLSVDWVVAEHAKVTKLLESVAKQTGDNLN
DMVGDVNLNEFEISDDTDSTDKSANDEMDVEDAPIVKFLQKMLIDAFNMRASDLHFEPYEHNYRIRYRIDGELREIASPP
TGIKDKLASRIKVISRLDISEKRVPQDGRMKLKIGADRVIDFRVSTLPTLFGEKIVIRILDPSSAKLGIDALGYEPVEKE
RLLDAIKRPYGMILVTGPTGSGKTVSLYTCLNILNTPAVNIATAEDPSEINLPGVNQVNVNEKAGLTFATALKAFLRQDP
DIIMVGEIRDLETADIAIKAAQTGHLVLSTLHTNDAPTTLTRMRNMGIAPFNIASSVILITAQRLARRLCPNCKRPTEIP
HENLLEAGFADEDLDGTWMPYEAVGCDACNNGYKGRVGIYQVMPVSEEIQRIILRDGSALEIAEQAELEGVRSLRQSGLH
KVKKGLTSLEEVLAVTNE

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=605961 LAD35_RS17130 WP_224150171.1 3708103..3709839(+) (pilB) [Comamonas odontotermitis strain WLL]
ATGGCTGACAACACCACAATTTCTCCAGCACCATCCATTGCACTGCCGGGCATCGCCCGTGCCTTGGTCGCCAGCGGCAA
GCTTCCGTTGGCCAAGGCCGAGGCTTTGTATGCCAGCAGTATCAAGAGCAAAAACAGCTTCATTGGAGAACTGGTTGCCA
GCGGCGCTGTTTCAGGCATTGATGTCGCCACCATCATTTCTGCCGTCTACAGCGTCCCGCTGATTGATCTTGACGCGGTC
GATGCAGACCGGCTGCCCAGCGGGCTTCTGGATGCCAAACTGGCATCCGCCAACAAGATCGTCGCACTCGCCAAGCGCGG
CAATCGCCTGGTGGTAGCCACTGCAGACCCCACCGACCACTCCGTGGCGGAGCAGATCAAGTTCAGCACGCAGCTCAGCG
TGGATTGGGTGGTTGCCGAGCACGCCAAGGTAACCAAGCTGCTCGAATCGGTCGCCAAGCAAACAGGAGACAACCTCAAC
GACATGGTTGGCGATGTCAATCTCAATGAGTTTGAGATTTCGGACGATACAGACTCGACCGACAAGAGCGCCAACGATGA
GATGGACGTCGAGGATGCGCCCATCGTCAAATTCCTGCAGAAGATGCTGATCGATGCATTCAATATGCGCGCATCCGACC
TGCATTTTGAGCCCTACGAGCACAACTACCGCATTCGCTACCGTATCGACGGCGAACTGCGCGAGATTGCATCGCCGCCG
ACAGGCATCAAGGACAAGCTCGCCTCCCGCATCAAGGTCATTTCGCGCCTGGACATCTCCGAAAAGCGAGTGCCGCAGGA
CGGCCGCATGAAGCTGAAGATCGGTGCGGACCGGGTGATCGACTTCCGTGTGAGCACCTTGCCAACCCTGTTTGGCGAGA
AGATCGTGATCCGTATTCTGGACCCGAGCAGCGCCAAGCTGGGCATTGACGCCCTTGGCTATGAGCCCGTTGAGAAGGAG
CGCCTGCTTGATGCGATCAAGCGTCCCTACGGCATGATCCTAGTGACGGGCCCGACTGGCTCGGGCAAGACCGTGTCGCT
CTATACCTGCCTCAATATCCTGAATACGCCAGCAGTCAACATCGCCACGGCAGAAGACCCTTCGGAAATCAATCTTCCGG
GCGTCAACCAGGTCAACGTCAATGAAAAGGCGGGCCTGACCTTCGCGACGGCCCTCAAGGCGTTTCTGCGGCAGGATCCT
GACATCATCATGGTGGGTGAAATCCGTGATCTGGAAACGGCCGATATCGCCATCAAGGCCGCACAGACAGGTCACTTGGT
GCTCTCAACGCTGCACACCAACGACGCCCCCACCACGCTCACTCGTATGCGCAACATGGGTATTGCGCCGTTCAACATCG
CGTCCAGCGTGATCCTGATCACCGCTCAGCGCCTGGCGCGGCGTCTGTGCCCCAATTGCAAGCGCCCGACGGAAATTCCG
CACGAGAATCTGCTGGAAGCCGGATTTGCCGACGAAGATCTGGATGGAACCTGGATGCCCTATGAGGCGGTCGGATGCGA
TGCCTGCAACAATGGTTATAAGGGGCGGGTCGGTATCTACCAGGTGATGCCCGTTTCCGAAGAGATTCAGCGCATCATCC
TGCGCGACGGCAGCGCACTGGAAATCGCGGAACAGGCCGAGCTGGAGGGCGTACGCTCCCTGCGCCAGTCTGGTCTTCAC
AAAGTCAAAAAGGGATTGACCTCGCTGGAAGAGGTTCTGGCCGTCACCAACGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(51-152)


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

55.142

97.578

0.538
  pilB Acinetobacter baumannii D1279779

54.787

97.578

0.535
  pilF Neisseria gonorrhoeae MS11

52.641

98.27

0.517
  pilB Legionella pneumophila strain ERS1305867

51.499

98.097

0.505
  pilB Vibrio cholerae strain A1552

48.643

89.273

0.434
  pilB Vibrio campbellii strain DS40M4

44.05

97.405

0.429
  pilB Vibrio parahaemolyticus RIMD 2210633

44.144

96.021

0.424
  pilF Thermus thermophilus HB27

39.7

92.388

0.367
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

42.916

84.256

0.362