Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AB3471_RS04015 Genome accession   NZ_CP162520
Coordinates   932046..933740 (-) Length   564 a.a.
NCBI ID   WP_003317776.1    Uniprot ID   -
Organism   Pseudomonas syringae pv. atrofaciens strain UPB 463     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 927046..938740
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB3471_RS03980 (AB3471_03975) - 927256..927789 (-) 534 WP_004415089.1 MOSC domain-containing protein -
  AB3471_RS03985 (AB3471_03980) - 927786..928415 (-) 630 WP_003345130.1 DUF1780 domain-containing protein -
  AB3471_RS03990 (AB3471_03985) - 928538..928999 (+) 462 WP_003317780.1 hypothetical protein -
  AB3471_RS03995 (AB3471_03990) yacG 929126..929335 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  AB3471_RS04000 (AB3471_03995) coaE 929332..929955 (-) 624 WP_004415092.1 dephospho-CoA kinase -
  AB3471_RS04005 (AB3471_04000) pilD 929952..930824 (-) 873 WP_004415094.1 A24 family peptidase Machinery gene
  AB3471_RS04010 (AB3471_04005) pilC 930826..932043 (-) 1218 WP_003423061.1 type II secretion system F family protein Machinery gene
  AB3471_RS04015 (AB3471_04010) pilB 932046..933740 (-) 1695 WP_003317776.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB3471_RS04020 (AB3471_04015) - 933968..934402 (+) 435 WP_003317775.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  AB3471_RS04025 (AB3471_04020) - 934631..935176 (-) 546 WP_004415097.1 DUF1523 family protein -
  AB3471_RS04030 (AB3471_04025) - 935296..936294 (+) 999 WP_004415099.1 ATP-grasp domain-containing protein -
  AB3471_RS04035 (AB3471_04030) - 936349..937488 (+) 1140 WP_004415100.1 trypsin-like peptidase domain-containing protein -
  AB3471_RS04040 (AB3471_04035) - 937555..938688 (+) 1134 WP_004415102.1 phosphoribosyltransferase domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62683.92 Da        Isoelectric Point: 6.1242

>NTDB_id=1026878 AB3471_RS04015 WP_003317776.1 932046..933740(-) (pilB) [Pseudomonas syringae pv. atrofaciens strain UPB 463]
MTDAVLSGLAKQLVLAELLTEPAAQQAYLQARREKISLVSYLVQNKLVKSLTLAEMASDQFGIPFMDLSNLEKESQPKGL
VSEKLVRQHHALPLWRRGNRLFIGVSDPTNHQAVTDIQFSTGLNTEAILVEDDKLSNAIEKFFETGNGLGEMEDVDLGLE
VEQPDGKETSLADQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKTFRVRLRTDGILHEVAKPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKRELDIPRETLIKEGFTEER
IGTFKIYGPVGCEHCNGGYRGRVGIYEVVKKTPELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=1026878 AB3471_RS04015 WP_003317776.1 932046..933740(-) (pilB) [Pseudomonas syringae pv. atrofaciens strain UPB 463]
ATGACTGACGCTGTGCTCTCAGGTTTGGCCAAACAACTGGTGCTCGCCGAGCTACTCACTGAACCTGCTGCCCAGCAAGC
GTACCTACAGGCGCGGCGCGAAAAGATTTCGCTGGTCAGCTATCTGGTTCAGAACAAATTAGTCAAAAGCCTGACGCTTG
CAGAGATGGCATCTGACCAATTTGGCATTCCGTTCATGGACCTTTCGAACCTTGAAAAGGAAAGTCAGCCAAAAGGGCTG
GTAAGCGAAAAGCTGGTCCGACAACACCATGCACTCCCCCTGTGGCGACGCGGAAACAGGCTTTTTATAGGCGTATCCGA
CCCCACTAACCATCAGGCAGTGACTGATATCCAGTTCAGCACCGGTTTAAATACCGAGGCGATACTTGTAGAAGACGACA
AACTTAGCAATGCCATCGAAAAGTTTTTTGAGACAGGCAATGGCTTGGGAGAGATGGAAGACGTTGACCTCGGCCTGGAA
GTTGAACAACCCGATGGCAAAGAGACCTCGCTTGCTGATCAGAACGATGCTGACGACGCTCCTGTAGTGCGCTTCGTGAA
CAAAATGTTGATGGACGCTATCCGCCTCGGCTCTTCGGATCTGCATTTTGAGCCCTACGAAAAGACCTTTCGCGTGCGCC
TGCGTACCGACGGCATCCTGCATGAAGTCGCCAAGCCGCCGATCCATCTGGCGAACCGTATTGCCGCGCGTTTAAAAGTT
ATGGCCAGCCTCGATATCTCGGAACGACGCAAACCGCAGGACGGCCGGGTCAAGCTGAGAGTGTCCAAAACCAAAGCTAT
CGACTTTCGTATGAACACCTTGCCTACGCTGTGGGGGGAGAAAATCGTGATGCGGATTCTCGATCCAACCAGCGCGCAGA
TGGGTATCGATGCACTCGGTTACGAGCCCGAGCAAAAGGCGCTATATCTCGAAGCGTTGAAACAACCGCAAGGCATGATT
CTGGTCACAGGCCCTACAGGGTCGGGTAAAACTGTTTCGCTCTATACCGGCCTAAACATTCTCAACACAGTGGATATCAA
TATTTCCACCGCCGAGGATCCAGTAGAGATCAATCTGGAAGGCATCAATCAGGTCAACGTAAATCCGCGCCAAGGCCTGG
ATTTTTCACAAGCATTGCGGGCTTTTCTGCGTCAGGATCCTGACGTAATCATGGTCGGTGAAATTCGAGACCTGGAAACT
GCAGAGATCGCCATCAAGGCATCGCAGACCGGCCACATGGTGTTATCGACCCTTCACACCAACAGCGCCGCAGAAACGCT
GACCCGCCTGCATCACATGGGCGTCGCAGCGTTCAACATCGCTACTGCGATCAATTTGATTATCGCGCAACGACTCGCAC
GCAAATTATGTAGCCATTGCAAGAGAGAACTCGATATTCCTCGCGAAACGCTGATTAAGGAAGGGTTTACAGAGGAGAGA
ATTGGCACTTTCAAAATCTACGGCCCGGTGGGCTGTGAGCACTGCAACGGGGGTTACCGAGGCAGGGTGGGTATTTACGA
AGTGGTCAAGAAGACGCCAGAGCTGGAACGAATCATCATGGAAGAAGGTAACTCGCTGGAGATATCCAGGCAGATGCGCA
AGGACGGCTTTAATGATCTGCGTACATCAGGCCTTTCAAAGGCCATGCAGGGCATCACAAGCCTGGAAGAAGTCAACCGT
GTGACTAAGGATTAA

Domains

Predicted by InterproScan.

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

(42-145)

Type II/IV secretion system protein (T2SSE)

(188-455)


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

58.127

100

0.583
  pilB Acinetobacter baumannii D1279779

57.469

100

0.58
  pilB Legionella pneumophila strain ERS1305867

55.654

100

0.559
  pilB Vibrio cholerae strain A1552

50.712

99.645

0.505
  pilB Vibrio parahaemolyticus RIMD 2210633

50.903

98.227

0.5
  pilB Vibrio campbellii strain DS40M4

49.113

100

0.491
  pilF Neisseria gonorrhoeae MS11

48.841

99.468

0.486
  pilF Thermus thermophilus HB27

38.693

100

0.388
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.931

92.908

0.362

Multiple sequence alignment