Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   CLAM6_RS03845 Genome accession   NZ_AP021868
Coordinates   896093..897829 (-) Length   578 a.a.
NCBI ID   WP_153635190.1    Uniprot ID   -
Organism   Cobetia sp. AM6     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 891093..902829
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CLAM6_RS03820 (CLAM6_07410) - 891768..892721 (+) 954 WP_043332483.1 Nudix family hydrolase -
  CLAM6_RS03825 (CLAM6_07420) yacG 892853..893098 (-) 246 WP_153635187.1 DNA gyrase inhibitor YacG -
  CLAM6_RS03830 (CLAM6_07430) coaE 893091..893741 (-) 651 WP_153635188.1 dephospho-CoA kinase -
  CLAM6_RS03835 (CLAM6_07440) pilD 893738..894598 (-) 861 WP_172978616.1 A24 family peptidase Machinery gene
  CLAM6_RS03840 (CLAM6_07450) pilC 894680..895918 (-) 1239 WP_153635189.1 type II secretion system F family protein Machinery gene
  CLAM6_RS03845 (CLAM6_07460) pilB 896093..897829 (-) 1737 WP_153635190.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CLAM6_RS03850 (CLAM6_07470) - 898401..898865 (+) 465 WP_153635191.1 pilin -
  CLAM6_RS03855 (CLAM6_07480) - 898923..899225 (-) 303 WP_043332474.1 hypothetical protein -
  CLAM6_RS03860 (CLAM6_07490) - 899398..900684 (-) 1287 WP_153635192.1 cation diffusion facilitator family transporter -
  CLAM6_RS03865 (CLAM6_07500) - 900758..902317 (-) 1560 WP_242007736.1 ABC transporter permease -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 63419.56 Da        Isoelectric Point: 4.8415

>NTDB_id=75072 CLAM6_RS03845 WP_153635190.1 896093..897829(-) (pilB) [Cobetia sp. AM6]
MPQSEHTLKGFAARLVDSGLLEPQAAQLAEQEANEVGESLLLHIITHGLVPAREATLAAAWEYGLPYVDLDALRIDSLPA
IDELPEKVLRKLGVLPLYRREHRLTVGVPSPSTLTHLDELQFATGLSIESVLVAADQLTPALEQYLEAGEESAIDMLGGE
GEALDGLEFEGEEDNNNDLAITASSDDAPVVRFVHKVLMDAIKRGASDIHFEPYESTYRIRFRIDGMLIENTRPPFNMRN
RISARLKVMSRMDISERRLPQDGAIKLRLSKSRSIDFRVNTLPTVYGEKLVLRILDPSSAKMGIEALGFEPEQRAMFEKT
LDQPQGMILVTGPTGSGKTVTLYTGLNILNTPERNISTAEDPVELKVEGVNQVNVLPKIGLDFASALRAFLRQDPDVVMV
GEIRDKETAEIAVKAAQTGHLVLSTLHTNSAPETLTRLSNMGIAPFNIASSVSLIIAQRLARRLCAHCRQPAEIPPEAMA
SMGFSEDNGFSAAELEAATIFRPVGCSQCTLGYKGRVGIYEVMPISDEMSRLIMREGTAIELADQARKEGLSDLRRSGLR
KVMSGMTSLEEVNRITKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=75072 CLAM6_RS03845 WP_153635190.1 896093..897829(-) (pilB) [Cobetia sp. AM6]
ATGCCCCAGTCAGAACACACGCTAAAAGGATTTGCCGCCCGACTGGTCGACTCTGGCCTGCTCGAACCACAGGCAGCACA
GCTGGCTGAACAAGAAGCCAATGAGGTCGGGGAAAGCCTGTTGTTGCACATTATCACGCATGGTCTGGTACCGGCGCGTG
AGGCGACATTGGCGGCCGCCTGGGAATACGGCCTGCCGTATGTGGATCTCGATGCCCTTCGTATCGACTCGCTGCCCGCC
ATTGATGAGCTGCCCGAGAAGGTGCTGCGTAAGCTGGGGGTATTGCCACTTTATCGCCGTGAGCATCGCCTGACCGTCGG
TGTGCCCTCCCCATCGACGCTCACGCATCTTGATGAACTGCAATTTGCCACGGGCTTGTCGATCGAGAGTGTTCTGGTCG
CTGCCGACCAGCTGACGCCGGCATTGGAACAGTATCTGGAAGCCGGCGAAGAAAGTGCCATTGATATGCTTGGCGGCGAA
GGTGAAGCCCTCGATGGCTTGGAGTTCGAGGGGGAGGAGGATAACAATAACGATCTGGCCATCACGGCCAGCAGTGATGA
TGCGCCAGTGGTACGCTTCGTGCACAAGGTACTGATGGATGCCATCAAGCGTGGCGCCTCGGATATCCACTTCGAGCCCT
ATGAATCCACCTATCGCATTCGTTTCCGCATTGATGGCATGTTGATCGAGAATACCCGCCCGCCCTTCAATATGCGTAAC
CGTATCTCGGCGCGCCTGAAAGTCATGTCGCGCATGGATATTTCCGAGAGACGTTTGCCGCAGGATGGTGCAATCAAGCT
TCGTCTGTCCAAGTCCCGCTCCATCGATTTCCGCGTCAATACACTTCCCACCGTGTATGGCGAGAAGCTGGTGCTGCGTA
TTCTTGATCCCAGTTCGGCCAAGATGGGCATCGAAGCGCTGGGCTTCGAACCTGAACAGCGCGCCATGTTCGAGAAGACG
CTGGATCAGCCACAGGGCATGATCCTGGTCACCGGCCCGACCGGTAGCGGCAAGACCGTGACGCTCTATACCGGCTTGAA
TATCCTCAATACACCGGAGCGCAATATCTCGACGGCGGAAGACCCGGTCGAGCTCAAGGTAGAAGGCGTCAACCAGGTCA
ATGTACTGCCCAAGATCGGCCTGGACTTCGCCTCGGCCTTGCGCGCCTTCCTGCGCCAGGATCCCGATGTGGTTATGGTA
GGGGAGATTCGTGACAAGGAAACCGCCGAGATTGCCGTCAAGGCAGCCCAGACCGGTCATCTGGTACTTTCCACCTTGCA
CACAAACTCGGCGCCCGAGACGCTGACACGTCTGAGCAACATGGGGATTGCCCCTTTCAACATCGCGAGTTCTGTCTCGT
TGATCATCGCCCAGCGCCTTGCTCGCCGACTGTGCGCTCACTGCCGCCAACCTGCGGAAATTCCGCCTGAAGCGATGGCC
TCGATGGGCTTCAGTGAAGACAATGGCTTCAGTGCAGCAGAACTCGAGGCTGCAACCATATTCCGCCCCGTCGGTTGCAG
TCAGTGCACGCTAGGTTACAAGGGGCGAGTCGGCATCTATGAAGTCATGCCGATCTCGGATGAGATGAGCCGCTTGATCA
TGCGTGAGGGCACCGCCATCGAGCTGGCAGACCAGGCGCGCAAGGAGGGGCTTTCAGACCTGAGGCGAAGCGGCTTGCGC
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)

(31-150)


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 baumannii D1279779

53.054

99.135

0.526
  pilB Acinetobacter baylyi ADP1

51.652

99.481

0.514
  pilB Legionella pneumophila strain ERS1305867

50.957

99.481

0.507
  pilB Vibrio cholerae strain A1552

48.736

95.848

0.467
  pilB Vibrio campbellii strain DS40M4

49.162

92.907

0.457
  pilB Vibrio parahaemolyticus RIMD 2210633

49.162

92.907

0.457
  pilF Neisseria gonorrhoeae MS11

47.482

96.194

0.457
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.648

99.827

0.386
  pilF Thermus thermophilus HB27

38.761

97.751

0.379
  pilB/pilB1 Synechocystis sp. PCC 6803

41.445

91.003

0.377

Multiple sequence alignment