Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KQ937_RS01970 Genome accession   NZ_CP077686
Coordinates   395199..396890 (-) Length   563 a.a.
NCBI ID   WP_176848885.1    Uniprot ID   -
Organism   Photobacterium damselae strain Pdd0906     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 390199..401890
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KQ937_RS01940 (KQ937_01940) mutT 390731..391138 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  KQ937_RS01945 (KQ937_01945) yacG 391219..391428 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  KQ937_RS01950 (KQ937_01950) zapD 391437..392174 (-) 738 WP_005297594.1 cell division protein ZapD -
  KQ937_RS01955 (KQ937_01955) coaE 392242..392844 (-) 603 WP_106338475.1 dephospho-CoA kinase -
  KQ937_RS01960 (KQ937_01960) pilD 392846..393724 (-) 879 WP_284669261.1 A24 family peptidase Machinery gene
  KQ937_RS01965 (KQ937_01965) pilC 393907..395133 (-) 1227 WP_284649320.1 type II secretion system F family protein Machinery gene
  KQ937_RS01970 (KQ937_01970) pilB 395199..396890 (-) 1692 WP_176848885.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KQ937_RS01975 (KQ937_01975) - 396900..397328 (-) 429 WP_284669262.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  KQ937_RS01980 (KQ937_01980) ampD 397713..398291 (+) 579 WP_284669263.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  KQ937_RS01985 (KQ937_01985) pdhR 398651..399424 (+) 774 WP_284669264.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62431.00 Da        Isoelectric Point: 5.1685

>NTDB_id=582269 KQ937_RS01970 WP_176848885.1 395199..396890(-) (pilB) [Photobacterium damselae strain Pdd0906]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDCELAQHLSHIFGLTLVSVHDYDFEACCKAVYQRD
LVLRHRALPLAQNADTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELDQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFMQDKLRIPAG
TTLYKANSEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=582269 KQ937_RS01970 WP_176848885.1 395199..396890(-) (pilB) [Photobacterium damselae strain Pdd0906]
ATGCACACCACTCTCGCCTCGATTCTGCACCAGGCAGATCTGATCAGCTCGGTGCAGCAACAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGTATATTTAGCGATTGCGAACTGGCCCAACACCTTA
GCCACATTTTTGGTCTCACCCTCGTTTCGGTCCATGACTACGATTTTGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
CTGGTATTACGCCATCGCGCACTGCCCCTCGCCCAAAATGCGGACACACTGTTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGGCAAGATGAGTTCCGTTTTGCCACTGGACGCAATATTGAACCGCTACTGCTAGAAAACAAACAGCTCGAATCGG
CTATCCGTCGTATTTATGGCCGCGAGTTGGGCGAAACCACCAATATGGCCAGTCGTGATGTCAGCGATGATGATCTGAAT
AACTTAGTCGATATTGGTGATGACGAGCTGGATCAAACCACAGATCTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
CAACCAAGTGCTGCTCGATGCAGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCTTATGAAACCAGCTATCGGATCC
GTTTTCGTTGTGATGGCATCTTACACCAACACGCAACACCACCAGCCCATCTTTCTCGTCGTCTTTCTACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGCATAAAACTTAAGCTCACAGCCAATTTAGC
CGTAGATCTGCGTGTTTCTACCCTGCCCACTTTATGGGGGGAAAAAGTGGTGCTGCGTATTTTAGACAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTACAACCAACAACAAAAAGCCGCTTATCTTAATGCTCTGCAACAGCCGCAAGGGATG
ATCTTAATGACAGGGCCGACGGGCAGTGGCAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCAGAAGATCCGGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCCGGAC
TGGGGTTTGCTGAAGCGTTGCGCTCATTTTTACGTCAAGACCCTGATGTGGTGATGGTAGGTGAAATCCGCGATCTGGAA
ACTGCCTCTATTGCCGTTAAAGCTGCGCAAACTGGGCACTTAGTACTATCGACCTTGCACACCAATTCTGCCGCCGAAAC
CATCACCCGTTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCACTGACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTAGATGAGATTGACGGCTTTATGCAAGACAAACTGCGCATTCCGGCTGGC
ACTACCTTGTATAAAGCCAATTCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCGTTTAGTCGTCGGCTGGCTCAAGCTCTGGTTGATGGTGCTACCACCTTAGAGCTGGAAAATATCGCAGTAGAAG
AAGGGATGCTGACGCTACAACAATCGGGAATAGAAAAGCTCTGTCTTGGCATCACCAGTTTAAAAGAATTACAGCGCGTC
CTGCATTTTTAA

Domains

Predicted by InterproScan.

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

(38-143)

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 Vibrio cholerae strain A1552

61.989

100

0.62
  pilB Vibrio parahaemolyticus RIMD 2210633

60.924

100

0.609
  pilB Vibrio campbellii strain DS40M4

60.391

100

0.604
  pilB Legionella pneumophila strain ERS1305867

50.184

96.625

0.485
  pilB Acinetobacter baumannii D1279779

50.376

94.494

0.476
  pilB Acinetobacter baylyi ADP1

48.723

97.336

0.474
  pilF Neisseria gonorrhoeae MS11

44.366

100

0.448
  pilB/pilB1 Synechocystis sp. PCC 6803

40.27

92.185

0.371
  pilB Haemophilus influenzae Rd KW20

41.856

86.146

0.361