Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SWOO_RS01615 Genome accession   NC_010506
Coordinates   387315..389024 (-) Length   569 a.a.
NCBI ID   WP_012322963.1    Uniprot ID   B1KNB7
Organism   Shewanella woodyi ATCC 51908     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 382315..394024
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SWOO_RS25370 (Swoo_0310) - 382812..384551 (-) 1740 WP_012322960.1 integrase family protein -
  SWOO_RS01605 (Swoo_0311) - 384553..385779 (-) 1227 WP_012322961.1 site-specific integrase -
  SWOO_RS01610 (Swoo_0312) pilC 385999..387261 (-) 1263 WP_012322962.1 type II secretion system F family protein Machinery gene
  SWOO_RS01615 (Swoo_0313) pilB 387315..389024 (-) 1710 WP_012322963.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SWOO_RS01620 (Swoo_0314) - 389109..389552 (-) 444 WP_012322964.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  SWOO_RS01625 (Swoo_0315) nadC 390393..391283 (-) 891 WP_012322965.1 carboxylating nicotinate-nucleotide diphosphorylase -
  SWOO_RS01635 (Swoo_0316) ampD 391549..392121 (+) 573 WP_012322966.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  SWOO_RS01640 (Swoo_0317) ampE 392177..393028 (+) 852 WP_041417461.1 beta-lactamase regulator AmpE -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62866.95 Da        Isoelectric Point: 5.1083

>NTDB_id=30305 SWOO_RS01615 WP_012322963.1 387315..389024(-) (pilB) [Shewanella woodyi ATCC 51908]
MPTTGLHLGLSTLFIRKNLLTEEQIASSIAKSRQSKQSLVSTVISEKLISAREIAELCYEEYGTPLLDLDEFDIASIPED
FLNKKLIEKHKCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEDDKLTKALEKVLEEDISALDIGGIDEDA
LAGIEVEDTSKRDDDQNGESGDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLSGRISA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTIWGEKIVMRILDSSSAQLGIEKLGYEDDQRELYEEMLSKP
QGMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQPENVPEHELQKLGF
PQTAIDKGITTYKPIGCDLCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIANQAKTQGMRDLRGSGLLKVIQGVTSI
TEINRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=30305 SWOO_RS01615 WP_012322963.1 387315..389024(-) (pilB) [Shewanella woodyi ATCC 51908]
ATGCCAACAACAGGCCTGCACTTAGGTCTCTCCACTCTTTTCATCCGTAAAAATTTGCTCACAGAGGAGCAGATCGCTTC
CTCTATCGCCAAATCTAGACAAAGCAAACAATCTCTTGTCTCAACCGTTATCTCTGAAAAGTTAATTTCGGCTCGTGAAA
TTGCAGAACTCTGTTATGAAGAGTATGGCACCCCGCTTCTTGATCTTGATGAGTTCGATATCGCCAGTATTCCAGAAGAC
TTCCTTAACAAGAAACTGATCGAGAAGCACAAGTGTTTGCCCCTATTTAAACGAGGAAATCGCCTCTATATTGGTACTTC
TGATCCCACAAATATTGCCGCTTTAGAAGATTTTCAGTTCAGTGCAGGTTTGCATGCTGAAGCCATTCTAGTTGAAGATG
ATAAACTCACTAAAGCCTTAGAAAAAGTTTTGGAGGAGGATATATCCGCACTGGATATTGGCGGCATAGATGAAGATGCA
CTAGCCGGTATTGAAGTTGAAGATACCAGTAAGCGCGATGACGATCAAAATGGGGAGAGTGGTGATGATGCCCCTATCGT
TATCTACATCAATAAAATCCTTACCGATGCTATCCGCAAAGGAGCCTCAGATCTCCACTTCGAGCCTTATGAAAAACGTT
ACCGCATCCGCTTTCGTATTGATGGCATACTCCATGAGGTGTCTGAGCCACCAGTCAATTTATCTGGTCGAATATCAGCC
CGTTTAAAGGTGATGTCTAAGCTAGATATTGCAGAGCGACGTGTACCACAAGATGGCCGCATTAAGATGAAGCTTTCACG
CACAAAGTCTATTGATTTTCGTGTGAGCACCCTCCCCACTATCTGGGGTGAAAAGATAGTGATGCGTATTCTCGACTCCT
CTTCGGCGCAACTTGGCATTGAGAAATTGGGCTATGAGGATGATCAGCGAGAGCTTTATGAAGAGATGCTCTCTAAACCT
CAAGGGATGATCCTAGTCACAGGCCCTACTGGCTCTGGTAAAACCGTCTCCCTCTATACTGGCCTTAATATATTAAATAC
CGAAGAGCGTAATATCTCAACAGCTGAAGATCCAGTCGAGATAAACCTTGAAGGTGTAAACCAAGTTCATATCAACCTAA
AAGCTGGGCTAACTTTCGCCTCGGCGCTACGCTCATTCTTACGTCAAGATCCCGATGTGGTGATGGTGGGTGAGATCCGT
GATTTAGAAACCGCAGAGATAGCCATTAAAGCCGCTCAAACAGGACACTTGGTACTCTCAACTCTGCATACAAACTCGGC
AGCTGAAACACTCACTCGACTAATTAATATGGGCGTTCCAGGATATAACATTGCCAGCTCAGTTAATCTTATTATTGCTC
AACGCTTAGCACGTAGACTCTGCCCTGAGTGTAAACAGCCAGAAAATGTCCCTGAACATGAACTTCAAAAGCTCGGCTTT
CCACAAACAGCAATCGATAAAGGAATTACCACATATAAACCTATTGGTTGTGACTTGTGCTCCGGAGGTTATAAAGGTCG
AGTGGGGATCTATGAAGTAATGAAGATGTCAGATGAGATAGCCCGTACTATTATGGAGGGAGGTAACTCATTGCAGATTG
CTAATCAAGCTAAAACTCAAGGTATGCGAGACTTGCGAGGCTCAGGGCTACTCAAAGTCATTCAAGGCGTGACTAGCATT
ACAGAGATCAACCGCGTCACTAGCTTTTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(192-459)

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

(44-144)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB B1KNB7

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

59.18

98.594

0.583
  pilB Acinetobacter baumannii D1279779

57.194

98.946

0.566
  pilB Legionella pneumophila strain ERS1305867

54.947

99.473

0.547
  pilB Vibrio parahaemolyticus RIMD 2210633

52.641

99.824

0.525
  pilB Vibrio cholerae strain A1552

52.297

99.473

0.52
  pilB Vibrio campbellii strain DS40M4

51.95

99.121

0.515
  pilF Neisseria gonorrhoeae MS11

47.703

99.473

0.475
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.837

93.673

0.364
  pilF Thermus thermophilus HB27

36.572

99.473

0.364

Multiple sequence alignment