Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   IHC93_RS01965 Genome accession   NZ_CP090485
Coordinates   394795..396486 (-) Length   563 a.a.
NCBI ID   WP_237041290.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain AS-16-0963-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 389795..401486
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IHC93_RS01935 (IHC93_01935) mutT 390184..390591 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  IHC93_RS01940 (IHC93_01940) yacG 390812..391021 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IHC93_RS01945 (IHC93_01945) zapD 391030..391767 (-) 738 WP_005297594.1 cell division protein ZapD -
  IHC93_RS01950 (IHC93_01950) coaE 391838..392440 (-) 603 WP_237041288.1 dephospho-CoA kinase -
  IHC93_RS01955 (IHC93_01955) pilD 392442..393320 (-) 879 WP_237041289.1 prepilin peptidase Machinery gene
  IHC93_RS01960 (IHC93_01960) pilC 393503..394729 (-) 1227 WP_106338472.1 type II secretion system F family protein Machinery gene
  IHC93_RS01965 (IHC93_01965) pilB 394795..396486 (-) 1692 WP_237041290.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IHC93_RS01970 (IHC93_01970) - 396493..396942 (-) 450 WP_237041291.1 pilin -
  IHC93_RS01975 (IHC93_01975) ampD 397328..397906 (+) 579 WP_237041292.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  IHC93_RS01980 (IHC93_01980) pdhR 398266..399039 (+) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62528.16 Da        Isoelectric Point: 5.3583

>NTDB_id=642758 IHC93_RS01965 WP_237041290.1 394795..396486(-) (pilB) [Photobacterium damselae subsp. damselae strain AS-16-0963-1]
MHTTLASILHQADLISSVQQQQVEDSVSMEGITVPSALIHLGIFSDRELAQHLSHIFGLTLVSVHDYDFEACCKTVYQRD
LVLRHRALPLCQSANTLFLGVSDPCNIDGQDEFRFATGRNIEPLLLENKQLESAIRRIYGRELGETTNMASRDVSDDDLN
NLVDIGDDELDQTTDLGQENEPVTRYINQVLLDAVRKKASDIHFEPYETSYRIRFRCDGILHQHATPPAHLSRRLSTRLK
VMSRLNIAERRQPQDGRIKLKLTANLAVDLRVSTLPTLWGEKVVLRILDSSSANLDIDILGYNQQQKAAYLNALQQPQGM
ILMTGPTGSGKTVSLYTGLSILNTEERNISTAEDPVEINLPGINQVHINNQAGLGFAEALRSFLRQDPDVVMVGEIRDLE
TASIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGIEDFNLASSLTLIIAQRLGRRLCPHCKQVDEIDGFMQDKLRIPAG
TTLYKANPEGCDDCNKGYLGRVGIYEVMPFSRRLAQALVDGATTLELENIAVEEGMLTLQQSGIEKLCLGITSLKELQRV
LHF

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=642758 IHC93_RS01965 WP_237041290.1 394795..396486(-) (pilB) [Photobacterium damselae subsp. damselae strain AS-16-0963-1]
ATGCACACCACTCTCGCCTCGATTCTGCACCAGGCTGATCTGATCAGCTCGGTGCAGCAGCAACAAGTCGAAGACAGTGT
CAGTATGGAGGGGATCACGGTTCCCTCCGCACTGATCCATCTGGGTATTTTTAGCGATCGCGAACTGGCCCAACATCTTA
GCCACATATTTGGCCTCACCCTCGTTTCAGTTCATGACTACGATTTTGAAGCTTGCTGTAAAACGGTCTATCAACGCGAT
CTGGTATTACGTCATCGCGCGCTACCATTGTGCCAAAGCGCCAATACGCTATTTTTAGGGGTCAGCGATCCATGCAATAT
CGACGGGCAAGATGAGTTCCGTTTTGCCACTGGACGCAATATTGAGCCGCTACTGCTAGAAAACAAACAGCTCGAATCGG
CTATCCGTCGTATTTATGGTCGCGAGTTGGGCGAAACCACCAATATGGCCAGTCGTGATGTCAGCGATGATGATCTAAAT
AACTTAGTCGATATTGGTGATGACGAGCTGGATCAAACCACAGATCTAGGCCAAGAAAACGAACCTGTTACTCGCTATAT
TAATCAAGTGCTGCTTGATGCGGTACGTAAAAAAGCCTCCGATATCCATTTTGAACCTTATGAGACCAGTTATCGGATCC
GCTTTCGTTGTGATGGCATCTTACACCAACACGCAACACCACCAGCCCATCTTTCTCGTCGTCTCTCTACCCGACTCAAA
GTGATGTCGCGCCTAAATATTGCCGAACGACGCCAACCGCAAGATGGACGTATAAAACTCAAGCTCACAGCCAACTTAGC
TGTAGATCTGCGTGTTTCTACCCTACCCACTTTATGGGGTGAAAAAGTGGTACTGCGTATTTTAGACAGCTCCAGTGCCA
ACTTAGACATTGATATTTTAGGTTACAACCAACAACAAAAAGCTGCTTATCTTAATGCACTGCAACAGCCGCAAGGGATG
ATCTTAATGACAGGGCCAACGGGCAGCGGCAAAACCGTTTCGCTTTATACCGGCCTTAGCATTTTAAATACCGAAGAGCG
CAATATTTCTACCGCTGAAGATCCGGTAGAGATCAACTTACCCGGCATTAATCAGGTTCACATTAACAATCAAGCTGGCC
TCGGATTTGCTGAAGCGCTGCGCTCATTTTTACGTCAAGACCCTGATGTGGTGATGGTAGGTGAAATCCGCGATCTGGAA
ACCGCCTCTATTGCCGTTAAAGCAGCGCAAACTGGACACTTAGTACTATCGACCTTGCACACCAATTCTGCAGCCGAAAC
CATTACCCGTTTAACCAATATGGGCATTGAAGACTTTAACCTAGCCTCATCGCTAACACTGATTATTGCTCAGCGCTTAG
GTCGCCGGCTCTGCCCTCACTGTAAACAAGTAGATGAGATTGACGGCTTTATGCAAGACAAACTGCGCATTCCGGCTGGC
ACTACCTTGTATAAAGCCAATCCAGAAGGGTGTGATGACTGCAATAAAGGCTATTTAGGTCGTGTCGGTATCTATGAAGT
GATGCCATTTAGTCGTCGTCTGGCTCAAGCTCTGGTTGATGGCGCGACTACCTTGGAGCTGGAAAATATCGCAGTAGAAG
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

61.101

100

0.611
  pilB Vibrio campbellii strain DS40M4

60.746

100

0.607
  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