Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   U0O11_RS03710 Genome accession   NZ_CP142020
Coordinates   871315..873051 (-) Length   578 a.a.
NCBI ID   WP_324691722.1    Uniprot ID   -
Organism   Cobetia sp. D5 isolate Qingdao     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 866315..878051
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U0O11_RS03685 (U0O11_03685) - 866979..867932 (+) 954 WP_324691714.1 Nudix family hydrolase -
  U0O11_RS03690 (U0O11_03690) yacG 868063..868308 (-) 246 WP_043332481.1 DNA gyrase inhibitor YacG -
  U0O11_RS03695 (U0O11_03695) coaE 868301..868951 (-) 651 WP_324691716.1 dephospho-CoA kinase -
  U0O11_RS03700 (U0O11_03700) pilD 868948..869808 (-) 861 WP_324691718.1 A24 family peptidase Machinery gene
  U0O11_RS03705 (U0O11_03705) pilC 869901..871139 (-) 1239 WP_324691720.1 type II secretion system F family protein Machinery gene
  U0O11_RS03710 (U0O11_03710) pilB 871315..873051 (-) 1737 WP_324691722.1 type IV-A pilus assembly ATPase PilB Machinery gene
  U0O11_RS03715 (U0O11_03715) - 873623..874093 (+) 471 WP_324691724.1 pilin -
  U0O11_RS03720 (U0O11_03720) - 874137..874439 (-) 303 WP_043332474.1 hypothetical protein -
  U0O11_RS03725 (U0O11_03725) - 874610..875896 (-) 1287 WP_324691726.1 cation diffusion facilitator family transporter -
  U0O11_RS03730 (U0O11_03730) - 875970..877529 (-) 1560 WP_324691728.1 ABC transporter permease -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 63569.67 Da        Isoelectric Point: 4.8860

>NTDB_id=921099 U0O11_RS03710 WP_324691722.1 871315..873051(-) (pilB) [Cobetia sp. D5 isolate Qingdao]
MPQSEHTLKGFAARLVDSGLLEPQAAQLAEQEANEAGESLLLHIIAHGLVTARDATLAAAWEYGLPYVDLDALRIDSLPS
IDELPEKVLRKLGVLPLYRREHRLTVGVPSPSTLTHLDELQFATGLSIESVLVAADQLTPALEQYLEAGEESAMDMLNED
GEALDGLDFESEEDNKHDMAITASSDDAPVVRFVHKVLLDAIKRGASDIHFEPYESTYRIRFRIDGMLVENTRPPFNMRN
RISARLKVMSRMDISERRLPQDGAIKLRLSKSRSIDFRVNTLPTVYGEKLVLRILDPSSAKMGIEALGFEPEQRAMFEKT
LDQPQGMILVTGPTGSGKTVTLYTGLNILNTPERNISTAEDPVELKVEGVNQVNVLPKIGLDFASALRAFLRQDPDVVMV
GEIRDKETAEIAVKAAQTGHLVLSTLHTNSAPETLTRLSNMGIAPFNIASSVSLIIAQRLARRLCTHCRQPAEIPPEAMA
SMGFSEDNGFSAAELEAATIFRPVGCSQCTLGYKGRVGIYEVMPISDEMSRLIMREGTAIELADQARKEGLSDLRRSGLR
KVMSGMTSLEEVNRITKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=921099 U0O11_RS03710 WP_324691722.1 871315..873051(-) (pilB) [Cobetia sp. D5 isolate Qingdao]
ATGCCCCAGTCAGAACACACGCTAAAAGGATTTGCTGCACGACTGGTCGACTCTGGCCTGCTCGAACCACAGGCAGCACA
GCTGGCTGAACAGGAAGCCAATGAGGCTGGGGAAAGCCTGTTGCTGCATATCATCGCGCATGGCCTGGTGACGGCACGTG
ATGCGACATTGGCGGCCGCCTGGGAATACGGCTTGCCGTATGTGGATCTCGATGCCCTTCGTATCGACTCGCTGCCCTCC
ATTGATGAGCTGCCTGAGAAGGTCCTGCGCAAGCTGGGGGTATTGCCACTCTATCGCCGTGAGCATCGCTTGACCGTCGG
CGTGCCCTCCCCCTCGACGCTCACACACCTTGATGAACTGCAGTTTGCCACTGGCTTGTCGATCGAGAGTGTCCTGGTTG
CCGCCGACCAGCTGACGCCAGCACTGGAACAGTACCTGGAAGCCGGCGAAGAAAGCGCCATGGACATGCTGAACGAAGAT
GGTGAAGCGCTCGATGGACTGGATTTCGAAAGTGAAGAAGATAACAAACACGACATGGCCATCACGGCCAGCAGCGATGA
TGCTCCAGTGGTGCGCTTCGTTCACAAGGTGCTGCTGGATGCCATCAAGCGTGGCGCCTCGGATATCCACTTCGAGCCCT
ACGAATCCACCTATCGCATTCGTTTTCGTATCGATGGCATGTTGGTCGAGAATACCCGCCCGCCCTTCAATATGCGCAAT
CGTATCTCGGCACGCCTGAAGGTCATGTCGCGCATGGATATCTCTGAGCGCCGTTTACCACAGGATGGTGCGATCAAACT
GCGCCTGTCCAAGTCTCGCTCCATCGATTTCCGTGTCAACACACTGCCCACCGTGTATGGCGAGAAGCTGGTTTTGCGTA
TCTTGGACCCCAGTTCGGCCAAGATGGGCATCGAGGCGCTGGGCTTTGAACCCGAGCAGCGCGCCATGTTCGAGAAGACA
CTGGATCAGCCACAGGGCATGATCCTGGTCACTGGCCCGACCGGTAGCGGCAAGACCGTGACGCTCTACACCGGCCTGAA
TATCCTCAATACACCGGAGCGCAATATCTCGACGGCGGAAGACCCGGTCGAGCTCAAGGTAGAAGGCGTCAACCAGGTCA
ACGTGCTGCCCAAGATCGGCCTGGACTTCGCCTCGGCCCTGCGCGCCTTCCTGCGCCAGGATCCCGATGTGGTGATGGTG
GGGGAAATTCGTGACAAGGAAACCGCCGAGATTGCCGTCAAGGCGGCACAGACCGGTCACCTGGTACTTTCTACCTTGCA
TACCAACTCGGCGCCCGAGACACTGACACGCCTGAGCAACATGGGGATTGCCCCTTTCAACATCGCGAGTTCCGTCTCGT
TGATCATCGCTCAGCGCCTTGCTCGCCGCCTGTGTACCCACTGCCGCCAGCCAGCGGAGATTCCACCTGAGGCAATGGCC
TCGATGGGCTTCAGTGAAGACAATGGCTTCAGCGCAGCAGAACTCGAGGCGGCGACCATATTCCGTCCTGTCGGTTGCAG
TCAGTGCACGCTGGGTTACAAGGGGCGCGTCGGCATCTATGAAGTCATGCCGATCTCGGATGAGATGAGCCGCTTGATCA
TGCGTGAGGGCACCGCCATCGAGCTGGCAGACCAGGCGCGCAAGGAAGGGCTTTCAGACCTGAGGCGTAGCGGCTTGCGC
AAGGTGATGTCGGGCATGACCTCGCTGGAAGAAGTCAATCGCATCACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(196-463)

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

(45-150)


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

52.273

98.962

0.517
  pilB Acinetobacter baumannii D1279779

52.548

98.443

0.517
  pilB Legionella pneumophila strain ERS1305867

51.304

99.481

0.51
  pilB Vibrio parahaemolyticus RIMD 2210633

48.325

98.097

0.474
  pilB Vibrio cholerae strain A1552

47.487

99.827

0.474
  pilB Vibrio campbellii strain DS40M4

47.295

99.135

0.469
  pilF Neisseria gonorrhoeae MS11

47.662

96.194

0.458
  pilB/pilB1 Synechocystis sp. PCC 6803

42.315

91.176

0.386
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.087

99.481

0.379
  pilF Thermus thermophilus HB27

38.407

97.751

0.375