Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AB3467_RS21695 Genome accession   NZ_CP162521
Coordinates   5052898..5054595 (+) Length   565 a.a.
NCBI ID   WP_025261830.1    Uniprot ID   -
Organism   Pseudomonas cichorii strain UPB 461     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5047898..5059595
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB3467_RS21670 (AB3467_21560) - 5047943..5049079 (-) 1137 WP_025261826.1 trypsin-like peptidase domain-containing protein -
  AB3467_RS21675 (AB3467_21565) - 5049132..5050130 (-) 999 WP_025261827.1 ATP-grasp domain-containing protein -
  AB3467_RS21680 (AB3467_21570) - 5050253..5050801 (+) 549 WP_025261828.1 DUF1523 family protein -
  AB3467_RS21685 (AB3467_21575) - 5050808..5052058 (-) 1251 WP_371874961.1 O-antigen ligase family protein -
  AB3467_RS21690 (AB3467_21580) - 5052283..5052672 (-) 390 WP_038400031.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  AB3467_RS21695 (AB3467_21585) pilB 5052898..5054595 (+) 1698 WP_025261830.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB3467_RS21700 (AB3467_21590) pilC 5054598..5055815 (+) 1218 WP_025261831.1 type II secretion system F family protein Machinery gene
  AB3467_RS21705 (AB3467_21595) pilD 5055817..5056689 (+) 873 WP_025261832.1 A24 family peptidase Machinery gene
  AB3467_RS21710 (AB3467_21600) coaE 5056686..5057309 (+) 624 WP_025261833.1 dephospho-CoA kinase -
  AB3467_RS21715 (AB3467_21605) yacG 5057306..5057515 (+) 210 WP_025261834.1 DNA gyrase inhibitor YacG -
  AB3467_RS21720 (AB3467_21610) - 5057509..5057976 (-) 468 WP_025261835.1 hypothetical protein -

Sequence

Protein


Download         Length: 565 a.a.        Molecular weight: 62599.96 Da        Isoelectric Point: 6.3337

>NTDB_id=1026913 AB3467_RS21695 WP_025261830.1 5052898..5054595(+) (pilB) [Pseudomonas cichorii strain UPB 461]
MSDVVLTGLAKQLVEAELLTEKTAQQAYQQARRDKISLVSYLVQNKLVKSLVLAELASDQFGVPFLDLNCLDKESQPKGL
VSEKLVRQHHALPLWRRGNKLFVGVSDPTNHQAVTDIQFSTGLNTEAILVEDDKLTDAIEKLFDTGMGLGDMADVDLGLD
IEQADNAKETSISGKDDADDAPVVRFVNKMLMDAIRMGSSDLHFEPYEKVFRVRFRTDGILHEAAKPPIHLASRIAARLK
VMASLDISERRKPQDGRVKLRVSKSKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPDQKALYLEALKQPQGM
ILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGMDFSQALRAFLRQDPDVIMVGEIRDLE
TAEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCPHCKKEIEVPRETLLKEGFPES
EIGKFKIYGPVGCDHCNGGYRGRVGIYEVVKKTPELERIIMEEGNSLEISKQMRKDGFNDLRTSGLHKAMQGITSLEEVN
RVTKD

Nucleotide


Download         Length: 1698 bp        

>NTDB_id=1026913 AB3467_RS21695 WP_025261830.1 5052898..5054595(+) (pilB) [Pseudomonas cichorii strain UPB 461]
ATGTCTGATGTCGTCCTCACCGGTCTGGCCAAGCAATTGGTCGAAGCCGAGCTTCTCACTGAAAAAACTGCGCAGCAGGC
TTACCAACAGGCACGGCGCGACAAGATTTCGCTGGTCAGTTATCTGGTACAGAACAAACTGGTCAAAAGTCTGGTACTGG
CAGAGCTGGCATCCGATCAGTTCGGCGTGCCCTTCCTTGACCTCAATTGCCTTGATAAAGAAAGCCAGCCCAAAGGGCTG
GTCAGTGAAAAGCTGGTACGCCAGCATCATGCCCTGCCTTTATGGCGGCGCGGCAACAAGTTGTTCGTAGGAGTATCGGA
CCCCACCAACCATCAAGCCGTCACCGATATCCAGTTCAGTACAGGCCTCAATACCGAAGCGATTCTGGTTGAGGACGACA
AGCTCACCGATGCCATCGAAAAGCTGTTCGATACGGGCATGGGCCTCGGAGACATGGCAGATGTCGATCTGGGCCTGGAT
ATCGAGCAGGCCGATAACGCCAAAGAAACTTCGATATCCGGAAAAGACGATGCCGACGACGCCCCCGTAGTGCGCTTCGT
CAACAAGATGCTGATGGATGCCATTCGTATGGGCTCCTCGGACTTGCACTTCGAGCCTTATGAAAAGGTCTTTCGCGTGC
GCTTTCGTACCGATGGCATCTTGCATGAAGCCGCCAAGCCCCCTATCCATCTGGCCAGCCGGATTGCCGCACGCCTGAAA
GTCATGGCCAGTCTGGATATCTCGGAGCGGCGCAAGCCTCAGGATGGCCGAGTCAAACTACGGGTATCCAAAAGCAAGGC
CATCGATTTTCGTATGAACACCCTGCCAACGCTATGGGGTGAAAAGATTGTGATGCGGATCCTGGACCCCACCAGCGCCC
AGATGGGTATCGATGCGCTGGGGTATGAGCCGGATCAGAAAGCACTTTATCTTGAAGCACTCAAACAGCCACAAGGGATG
ATCCTGGTCACCGGCCCAACCGGGTCGGGTAAAACCGTTTCGCTCTATACCGGGCTGAATATCCTCAATACCGTGGACAT
CAATATTTCTACCGCCGAAGACCCGGTGGAGATCAACCTGGAAGGCATCAACCAGGTCAACGTCAACCCGCGCCAGGGCA
TGGACTTCTCCCAGGCGTTGCGAGCCTTTCTGCGTCAGGACCCGGACGTAATCATGGTGGGCGAGATCCGCGACCTGGAA
ACCGCAGAAATCGCGATCAAGGCCTCCCAGACCGGCCATATGGTGCTTTCCACCCTGCACACCAATAGCGCGGCAGAAAC
CCTGACACGCCTGCATCATATGGGCGTCGCGGCTTTTAACATTGCCACAGCCATCAACCTGATCATTGCCCAGCGTCTGG
CTCGCAAACTCTGCCCTCACTGCAAGAAAGAAATCGAGGTGCCACGGGAAACCCTGCTCAAGGAAGGTTTCCCGGAGTCG
GAAATAGGCAAGTTCAAAATCTACGGTCCTGTCGGTTGCGACCACTGCAATGGCGGCTACAGGGGCCGGGTCGGTATTTA
CGAAGTGGTCAAGAAAACCCCGGAGCTGGAACGCATCATCATGGAAGAAGGCAACTCACTGGAAATTTCAAAACAGATGC
GCAAGGACGGCTTCAATGACTTGCGCACTTCAGGCTTGCATAAAGCCATGCAGGGCATCACCAGTCTTGAAGAAGTCAAC
CGCGTGACCAAGGATTAA

Domains

Predicted by InterproScan.

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

(42-146)

Type II/IV secretion system protein (T2SSE)

(189-456)


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

58.23

100

0.582
  pilB Acinetobacter baylyi ADP1

57.801

99.823

0.577
  pilB Legionella pneumophila strain ERS1305867

54.912

100

0.554
  pilB Vibrio cholerae strain A1552

50.796

100

0.508
  pilB Vibrio parahaemolyticus RIMD 2210633

50

100

0.503
  pilB Vibrio campbellii strain DS40M4

49.737

100

0.503
  pilF Neisseria gonorrhoeae MS11

49.11

99.469

0.488
  pilF Thermus thermophilus HB27

38.889

98.761

0.384
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.783

93.097

0.361

Multiple sequence alignment