Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KFZ67_RS01960 Genome accession   NZ_CP074080
Coordinates   396280..397971 (-) Length   563 a.a.
NCBI ID   WP_284660377.1    Uniprot ID   -
Organism   Photobacterium damselae strain Pdd0210     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 391280..402971
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KFZ67_RS01930 (KFZ67_01925) mutT 391791..392198 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  KFZ67_RS01935 (KFZ67_01930) yacG 392300..392509 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  KFZ67_RS01940 (KFZ67_01935) zapD 392518..393255 (-) 738 WP_005297594.1 cell division protein ZapD -
  KFZ67_RS01945 (KFZ67_01940) coaE 393323..393925 (-) 603 WP_284660376.1 dephospho-CoA kinase -
  KFZ67_RS01950 (KFZ67_01945) pilD 393927..394805 (-) 879 WP_151171377.1 A24 family peptidase Machinery gene
  KFZ67_RS01955 (KFZ67_01950) pilC 394988..396214 (-) 1227 WP_106338472.1 type II secretion system F family protein Machinery gene
  KFZ67_RS01960 (KFZ67_01955) pilB 396280..397971 (-) 1692 WP_284660377.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KFZ67_RS01965 (KFZ67_01960) pilA 397978..398370 (-) 393 WP_284660378.1 pilin Machinery gene
  KFZ67_RS01970 (KFZ67_01965) ampD 398756..399334 (+) 579 WP_106261933.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  KFZ67_RS01975 (KFZ67_01970) pdhR 399694..400467 (+) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62479.01 Da        Isoelectric Point: 5.2594

>NTDB_id=563054 KFZ67_RS01960 WP_284660377.1 396280..397971(-) (pilB) [Photobacterium damselae strain Pdd0210]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDFEACCKAVYQRD
LVLRHRALPLAQNADTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELDQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFIQDKLRIPAG
TTLYKANSEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGANTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=563054 KFZ67_RS01960 WP_284660377.1 396280..397971(-) (pilB) [Photobacterium damselae strain Pdd0210]
ATGCACACCACTCTTGCCTCGATTCTGCACCAAGCTGATCTGATCAGCTCGGTGCAACAGCAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGCATCTTTAGCGATCGCGAACTGGCCCAGCACCTTA
GCCACATATTTGGTCTCACCCTCGTTTCGGTCCATGACTACGATTTTGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
CTGGTATTACGTCATCGCGCACTGCCCCTCGCCCAAAATGCGGACACACTGTTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGACAAGATGAGTTCCGTTTTGCCACCGGACGTAATATTGAACCACTGCTGCTGGAAAACAAGCAGCTCGAATCTG
CTATCCGTCGTATTTATGGCCGCGAGTTGGGCGAAACCACCAACATGGCCAGTCGTGATGTCAGCGATGATGATCTGAAT
AACTTAGTCGATATTGGTGATGATGAGCTGGATCAAACCACAGATCTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
CAACCAAGTACTGCTCGATGCGGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCATATGAGACCAGCTATCGGATCC
GTTTTCGTTGTGATGGGATCTTGCACCAACATGCAACACCACCAGCCCATCTTTCTCGTCGTCTTTCTACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGCATAAAACTCAAGCTCACAGCCAATTTAGC
CGTAGATCTGCGAGTGTCTACCCTGCCAACTTTATGGGGTGAAAAAGTGGTGCTGCGTATTTTAGACAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTACAACCAACAACAAAAAGCCGCTTATCTTAATGCTCTGCAACAGCCACAAGGGATG
ATCTTAATGACAGGGCCAACGGGCAGCGGCAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCAGAAGATCCAGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCAGGAC
TGGGGTTTGCTGAAGCGCTGCGCTCATTTTTACGTCAAGACCCCGATGTGGTGATGGTAGGTGAAATCCGCGATCTGGAA
ACCGCCTCTATTGCTGTTAAAGCAGCGCAAACTGGGCACTTAGTGCTATCGACCTTGCACACCAATTCTGCCGCCGAAAC
CATCACCCGTTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCACTGACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTAGATGAGATTGACGGCTTTATTCAAGATAAACTGCGCATTCCGGCTGGC
ACTACCTTGTATAAAGCCAATTCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCGTTTAGTCGCCGACTTGCTCAAGCTCTGGTTGATGGCGCTAATACCTTAGAGCTGGAAAATATCGCAGTAGAAG
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

50.368

96.625

0.487
  pilB Acinetobacter baylyi ADP1

48.905

97.336

0.476
  pilB Acinetobacter baumannii D1279779

50.864

92.54

0.471
  pilF Neisseria gonorrhoeae MS11

44.19

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

40.077

92.185

0.369
  pilB Haemophilus influenzae Rd KW20

42.062

86.146

0.362