Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   IHC92_RS01945 Genome accession   NZ_CP090487
Coordinates   392386..394077 (-) Length   563 a.a.
NCBI ID   WP_237035052.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain AS-15-3942-9     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 387386..399077
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IHC92_RS01915 (IHC92_01915) mutT 387906..388346 (-) 441 WP_086957272.1 8-oxo-dGTP diphosphatase MutT -
  IHC92_RS01920 (IHC92_01920) yacG 388406..388615 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IHC92_RS01925 (IHC92_01925) zapD 388624..389361 (-) 738 WP_237035048.1 cell division protein ZapD -
  IHC92_RS01930 (IHC92_01930) coaE 389429..390031 (-) 603 WP_237035049.1 dephospho-CoA kinase -
  IHC92_RS01935 (IHC92_01935) pilD 390033..390911 (-) 879 WP_237035050.1 prepilin peptidase Machinery gene
  IHC92_RS01940 (IHC92_01940) pilC 391094..392320 (-) 1227 WP_237035051.1 type II secretion system F family protein Machinery gene
  IHC92_RS01945 (IHC92_01945) pilB 392386..394077 (-) 1692 WP_237035052.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IHC92_RS01950 (IHC92_01950) - 394087..394515 (-) 429 WP_065170818.1 pilin -
  IHC92_RS01960 (IHC92_01960) ampD 394932..395510 (+) 579 WP_065171772.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  IHC92_RS01965 (IHC92_01965) pdhR 395870..396643 (+) 774 WP_065171771.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62466.08 Da        Isoelectric Point: 5.3583

>NTDB_id=642794 IHC92_RS01945 WP_237035052.1 392386..394077(-) (pilB) [Photobacterium damselae subsp. damselae strain AS-15-3942-9]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDFEACCKAVYQRD
LVLRHRALPLCQSANTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELDQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFVQDKLRIPAG
TTLYKANPEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=642794 IHC92_RS01945 WP_237035052.1 392386..394077(-) (pilB) [Photobacterium damselae subsp. damselae strain AS-15-3942-9]
ATGCACACCACTCTCGCCTCGATTCTGCACCAGGCTGATCTGATCAGCTCGGTGCAGCAACAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGTATATTTAGCGATCGCGAACTGGCCCAACACCTTA
GCCACATTTTTGGTCTCACCCTCGTTTCGGTTCATGACTACGACTTTGAAGCTTGCTGTAAAGCGGTCTATCAACGCGAT
TTGGTATTACGTCATCGCGCTCTACCGTTATGCCAAAGCGCCAATACGCTATTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGGCAAGATGAGTTCCGTTTTGCCACTGGACGCAATATTGAACCGCTACTACTAGAAAACAAACAGCTCGAATCAG
CTATCCGTCGTATTTATGGCCGCGAGTTGGGCGAAACCACTAATATGGCCAGTCGTGATGTCAGCGATGATGATCTGAAT
AACTTAGTCGATATTGGTGATGATGAGCTGGATCAAACCACAGATCTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
CAACCAAGTGCTGCTCGATGCGGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCTTATGAGACCAGTTATCGGATTC
GATTTCGTTGTGATGGGATCTTACACCAACACGCAACACCACCAGCCCATCTTTCTCGTCGTCTCTCAACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGCATAAAACTCAAGCTCACAGCCAATTTAGC
CGTAGATCTACGGGTTTCTACCCTACCCACTTTATGGGGTGAAAAAGTGGTGCTGCGTATTTTAGATAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTACAACCAACAACAAAAAGCCGCTTACCTTAATGCTCTGCAACAACCGCAAGGGATG
ATCTTAATGACAGGGCCTACGGGTAGCGGCAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCTGAAGATCCGGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCCGGAC
TGGGGTTTGCTGAAGCGTTGCGCTCATTTTTACGTCAAGACCCTGATGTAGTGATGGTAGGTGAAATCCGCGATCTGGAA
ACTGCCTCTATTGCCGTTAAAGCTGCGCAAACTGGGCACTTAGTACTATCGACCTTGCACACCAATTCTGCCGCTGAAAC
CATTACCCGTTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCGCTAACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTGGATGAGATTGACGGCTTTGTGCAAGACAAACTGCGCATTCCAGCTGGC
ACTACCTTGTATAAAGCCAATCCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCATTTAGTCGCCGTCTGGCTCAAGCTCTGGTTGATGGTGCTACCACCTTAGAGCTGGAAAATATCGCAGTAGAAG
AAGGGATGCTAACGCTACAACAATCGGGAATAGAAAAGCTTTGTCTTGGCATCACCAGTTTAAAAGAATTACAGCGCGTC
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

61.101

100

0.611
  pilB Vibrio campbellii strain DS40M4

60.568

100

0.606
  pilB Legionella pneumophila strain ERS1305867

50.184

96.625

0.485
  pilB Acinetobacter baylyi ADP1

49.453

97.336

0.481
  pilB Acinetobacter baumannii D1279779

50

94.494

0.472
  pilF Neisseria gonorrhoeae MS11

44.19

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

39.499

92.185

0.364
  pilB Haemophilus influenzae 86-028NP

41.856

86.146

0.361
  pilB Haemophilus influenzae Rd KW20

41.856

86.146

0.361