Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JFT56_RS17465 Genome accession   NZ_CP066369
Coordinates   4020867..4022576 (+) Length   569 a.a.
NCBI ID   WP_198781255.1    Uniprot ID   -
Organism   Shewanella putrefaciens strain CGMCC-1.6515     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4015867..4027576
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JFT56_RS17445 ampE 4016680..4017531 (-) 852 WP_198781251.1 beta-lactamase regulator AmpE -
  JFT56_RS17450 ampD 4017779..4018339 (-) 561 WP_198781252.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  JFT56_RS17455 nadC 4018546..4019427 (+) 882 WP_198781253.1 carboxylating nicotinate-nucleotide diphosphorylase -
  JFT56_RS17460 - 4020328..4020774 (+) 447 WP_198781254.1 pilin -
  JFT56_RS17465 pilB 4020867..4022576 (+) 1710 WP_198781255.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JFT56_RS17470 pilC 4022762..4024027 (+) 1266 WP_198781256.1 type II secretion system F family protein Machinery gene
  JFT56_RS17475 pilD 4024319..4025260 (+) 942 WP_198781257.1 prepilin peptidase Machinery gene
  JFT56_RS17480 coaE 4025542..4026159 (+) 618 WP_198781258.1 dephospho-CoA kinase -
  JFT56_RS17485 zapD 4026152..4026886 (+) 735 WP_198781259.1 cell division protein ZapD -
  JFT56_RS17490 yacG 4026966..4027175 (+) 210 WP_198781260.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62715.11 Da        Isoelectric Point: 5.7391

>NTDB_id=519492 JFT56_RS17465 WP_198781255.1 4020867..4022576(+) (pilB) [Shewanella putrefaciens strain CGMCC-1.6515]
MPTTGLHLGLSTLFIRKGLLNEEQMANAITKSRQTKQALVSTLVQGKLISARAIAELCYEEYGTPLLDLAEFDISAIPEE
FINKKLIEKHRCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEEDKLAKALEKILEEDITGLDLGGMDEAA
LAGIEITDTDRRNEEPTGDSSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQSEDVPEHELLRLGF
SEAQITQGFTSFKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIATQAKAQGMRDLRQSGLLKVIQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=519492 JFT56_RS17465 WP_198781255.1 4020867..4022576(+) (pilB) [Shewanella putrefaciens strain CGMCC-1.6515]
ATGCCAACAACAGGTCTTCATCTCGGTTTATCTACCCTCTTTATCCGTAAGGGCCTGCTAAATGAAGAGCAGATGGCGAA
TGCCATCACCAAATCCCGCCAAACAAAACAAGCCCTAGTTAGCACCTTAGTGCAGGGCAAACTGATCTCGGCCCGCGCCA
TTGCCGAGCTTTGCTATGAGGAATATGGCACACCGCTACTGGATTTAGCTGAATTTGATATTAGCGCCATCCCCGAAGAA
TTTATCAATAAAAAACTGATTGAAAAACACCGCTGCCTACCGCTGTTTAAACGGGGCAATCGCCTCTATATTGGCACCTC
CGACCCCACCAATATCGCCGCGCTGGAGGATTTTCAGTTTAGCGCCGGCCTACATGCCGAAGCCATTTTGGTGGAGGAAG
ATAAGCTCGCTAAGGCACTGGAAAAAATCCTCGAAGAGGATATTACCGGCCTAGATTTAGGCGGTATGGATGAGGCGGCG
CTGGCGGGGATTGAAATCACCGATACCGATAGGCGCAATGAGGAACCCACGGGGGATAGCAGTGACGATGCCCCTATCGT
TATTTATATCAACAAGATATTAACCGATGCTATTCGTAAGGGCGCATCGGACTTGCATTTTGAGCCCTATGAGAAACGCT
ACCGCATTCGTTTTCGTATCGATGGGATTTTGCATGAGGTCTCAGAGCCGCCCATTAGCCTGGCGGGCAGGTTATCGGCC
CGGTTAAAGGTAATGTCAAAACTCGATATTGCCGAGCGCCGGGTGCCGCAGGATGGGCGGATAAAAATGAAGCTCTCCCG
CACTAAGTCCATCGACTTTCGGGTGAGCACCCTACCCACCCTCTGGGGTGAAAAAATTGTAATGCGGATCTTGGACTCCT
CCTCCGCACAATTGGGGATTGAAAAGCTCGGTTACGAGCCGGACCAAGAGAAACTCTATTTAGAAATGCTGGCCAAACCC
CAGGGGATGATCCTCGTTACTGGTCCCACGGGTTCGGGTAAAACCGTCTCCCTTTATACTGGGTTAAATATTCTTAATAC
CGAGGAACGTAATATCTCTACCGCCGAAGATCCGGTGGAAATTAACCTCGAGGGTGTCAATCAGGTTCATATTAACTTAA
AGGCGGGGCTAACCTTTGCCTCGGCCCTGCGGTCATTTTTACGCCAAGACCCAGATGTAGTTATGGTGGGGGAAATTCGC
GACTTAGAAACCGCTGAGATTGCCATTAAGGCGGCGCAAACGGGTCACTTAGTGTTATCGACCCTACACACTAACTCGGC
GGCGGAAACCTTAACCCGTTTAATCAATATGGGCGTACCTGGCTATAATATCGCCAGTTCAGTCAACCTGATCATCGCCC
AGCGCCTCGCCCGTAGACTCTGTCCCGAGTGTAAGCAGAGTGAAGATGTTCCCGAACATGAATTGCTGCGGTTAGGTTTT
AGTGAAGCACAAATTACCCAAGGTTTTACCAGCTTTAAGCCCGTTGGCTGTGAGCATTGCTCCGGCGGCTATAAGGGCCG
CGTGGGGATTTATGAGGTGATGAAAATGTCCGATGAAATTGCCCGCACTATTATGGAAGGTGGCAACTCACTGCAAATAG
CCACCCAAGCTAAGGCCCAAGGCATGCGCGATCTGCGCCAATCAGGCTTATTAAAAGTGATACAGGGCGTAACCAGTATT
GCCGAAGTCAATCGGGTGACGAGTTTTTAA

Domains

Predicted by InterproScan.

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

(43-144)

Type II/IV secretion system protein (T2SSE)

(192-459)


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

59.893

98.594

0.591
  pilB Acinetobacter baumannii D1279779

59.45

95.782

0.569
  pilB Legionella pneumophila strain ERS1305867

56.584

98.77

0.559
  pilB Vibrio cholerae strain A1552

52.857

98.418

0.52
  pilB Vibrio parahaemolyticus RIMD 2210633

51.142

100

0.511
  pilB Vibrio campbellii strain DS40M4

50.883

99.473

0.506
  pilF Neisseria gonorrhoeae MS11

48.057

99.473

0.478
  pilB/pilB1 Synechocystis sp. PCC 6803

36.545

100

0.387
  pilF Thermus thermophilus HB27

39.037

98.594

0.385
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.559

97.54

0.376