Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   CKQ84_RS05420 Genome accession   NZ_CP023019
Coordinates   1265913..1267625 (+) Length   570 a.a.
NCBI ID   WP_105250407.1    Uniprot ID   -
Organism   Shewanella sp. WE21     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1260913..1272625
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CKQ84_RS05400 (CKQ84_05375) ampD 1261119..1261682 (-) 564 WP_105250403.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  CKQ84_RS05405 (CKQ84_05380) nadC 1261941..1262822 (+) 882 WP_105250404.1 carboxylating nicotinate-nucleotide diphosphorylase -
  CKQ84_RS05410 (CKQ84_05385) - 1263572..1263937 (+) 366 WP_105250405.1 type IV pilin protein -
  CKQ84_RS05415 (CKQ84_05390) - 1264125..1265483 (-) 1359 WP_105250406.1 O-antigen ligase -
  CKQ84_RS05420 (CKQ84_05395) pilB 1265913..1267625 (+) 1713 WP_105250407.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CKQ84_RS05425 (CKQ84_05400) pilC 1267763..1269034 (+) 1272 WP_105250408.1 type II secretion system F family protein Machinery gene
  CKQ84_RS05430 (CKQ84_05405) pilD 1269076..1270002 (+) 927 WP_105250409.1 A24 family peptidase Machinery gene
  CKQ84_RS05435 (CKQ84_05410) coaE 1270151..1270768 (+) 618 WP_105250410.1 dephospho-CoA kinase -
  CKQ84_RS05440 (CKQ84_05415) zapD 1270761..1271495 (+) 735 WP_105250411.1 cell division protein ZapD -
  CKQ84_RS05445 (CKQ84_05420) yacG 1271569..1271778 (+) 210 WP_006083355.1 DNA gyrase inhibitor YacG -
  CKQ84_RS05450 (CKQ84_05425) mutT 1271858..1272250 (+) 393 WP_105250412.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 570 a.a.        Molecular weight: 62856.30 Da        Isoelectric Point: 6.1659

>NTDB_id=244088 CKQ84_RS05420 WP_105250407.1 1265913..1267625(+) (pilB) [Shewanella sp. WE21]
MPSTGLHLGLSTLFIRKGLLNEEQMANAITKSRQNKQALVSTLVQSKLVSARAIAEMCYEEYGTPLLDLNEFDLASIPED
FLNKKLIEKHRCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEEDKLAKALEKILEEDISGLDLGGMDEAA
LASIEITDTDRRNEESAGEASDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQAEIIPEHELLRLGF
SQTQITQGFTTFKPVGCEHCSAGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIASQAKAQGMRDLRQSGLLKVIHGVTSI
AEVNRVTSFG

Nucleotide


Download         Length: 1713 bp        

>NTDB_id=244088 CKQ84_RS05420 WP_105250407.1 1265913..1267625(+) (pilB) [Shewanella sp. WE21]
ATGCCATCTACAGGCCTGCATTTGGGGTTATCGACCCTGTTTATCCGTAAAGGTCTGCTAAATGAAGAGCAGATGGCGAA
TGCCATCACAAAATCCCGTCAAAATAAGCAAGCGTTAGTAAGCACTTTAGTTCAAAGTAAACTGGTTTCAGCCCGTGCCA
TTGCTGAGATGTGCTATGAGGAATATGGCACGCCACTACTCGATCTCAATGAGTTTGATCTTGCTTCCATTCCTGAGGAC
TTCCTCAACAAAAAACTGATTGAAAAGCACCGTTGCTTACCGCTGTTTAAACGGGGAAATCGCCTCTATATAGGCACATC
CGACCCGACCAATATTGCCGCCCTCGAAGATTTCCAATTTAGTGCAGGCCTGCACGCCGAAGCGATTCTGGTTGAAGAAG
ATAAATTGGCTAAAGCGCTAGAAAAAATCCTCGAAGAAGACATCAGCGGCCTAGATTTAGGCGGCATGGATGAAGCGGCA
CTGGCGAGCATTGAAATTACCGACACTGACAGACGTAATGAAGAGTCCGCAGGCGAGGCCAGTGATGATGCACCTATTGT
TATCTATATCAATAAAATTCTAACCGATGCCATTCGTAAAGGAGCCTCGGATTTACACTTTGAACCCTATGAAAAGCGCT
ACCGCATTCGTTTTCGCATCGACGGTATTTTACACGAAGTCTCTGAACCCCCTATAAGCCTTGCAGGTCGTTTATCAGCG
CGCCTAAAAGTAATGTCGAAACTTGATATCGCCGAACGCCGCGTACCGCAAGACGGTCGGATCAAGATGAAGCTTTCCCG
CACTAAGTCCATCGACTTTCGGGTCAGCACTCTACCGACCTTATGGGGCGAAAAAATTGTAATGCGGATCTTGGATTCTT
CCTCCGCACAATTGGGCATTGAAAAGCTCGGCTACGAGCCCGACCAAGAAAAACTTTACCTTGAGATGTTAGCAAAACCC
CAAGGTATGATTTTAGTGACCGGCCCAACAGGCTCAGGTAAAACCGTCTCACTCTATACTGGGTTAAATATTCTCAATAC
TGAAGAGCGTAATATTTCTACCGCCGAAGATCCGGTAGAAATAAACCTTGAAGGCGTAAACCAAGTCCACATTAACTTAA
AAGCCGGTCTGACTTTCGCCTCCGCTTTACGTTCATTCCTACGCCAAGATCCCGATGTGGTGATGGTGGGTGAAATTCGC
GATCTTGAAACCGCCGAGATAGCCATTAAAGCAGCACAAACTGGCCACTTAGTACTATCGACCTTGCACACAAACTCGGC
CGCCGAAACCTTGACCCGTTTAATCAATATGGGCGTGCCCGGTTATAACATCGCCAGCTCAGTTAACCTGATTATTGCCC
AGCGTTTGGCGCGTCGACTTTGCCCCGAATGTAAGCAAGCTGAAATCATCCCTGAGCATGAACTATTACGTTTAGGTTTT
TCTCAAACACAAATTACACAAGGTTTTACCACCTTTAAACCTGTAGGCTGTGAACATTGCTCTGCAGGCTACAAAGGCCG
GGTTGGTATTTACGAAGTGATGAAGATGTCCGATGAGATAGCGCGTACTATCATGGAAGGCGGTAACTCCTTACAAATCG
CCTCCCAAGCTAAAGCGCAAGGGATGCGTGATTTACGTCAATCTGGATTATTGAAAGTGATTCACGGCGTAACTAGTATT
GCAGAAGTCAATCGCGTAACCAGTTTTGGCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(192-459)

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

(43-144)


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

59.537

98.421

0.586
  pilB Acinetobacter baumannii D1279779

59.266

95.614

0.567
  pilB Legionella pneumophila strain ERS1305867

55.872

98.596

0.551
  pilB Vibrio parahaemolyticus RIMD 2210633

51.67

99.825

0.516
  pilB Vibrio cholerae strain A1552

52.888

97.193

0.514
  pilB Vibrio campbellii strain DS40M4

51.327

99.123

0.509
  pilF Neisseria gonorrhoeae MS11

47.88

99.298

0.475
  pilF Thermus thermophilus HB27

38.693

99.298

0.384
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.71

97.895

0.379

Multiple sequence alignment