Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PK654_RS12945 Genome accession   NZ_CP116383
Coordinates   2771218..2772429 (+) Length   403 a.a.
NCBI ID   WP_271696185.1    Uniprot ID   -
Organism   Vibrio sp. SCSIO 43137     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2766218..2777429
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PK654_RS12925 (PK654_12925) pdhR 2767948..2768715 (-) 768 WP_271696182.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  PK654_RS12930 (PK654_12930) ampD 2768989..2769534 (-) 546 WP_271696183.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  PK654_RS12935 (PK654_12935) nadC 2769705..2770592 (+) 888 WP_271698881.1 carboxylating nicotinate-nucleotide diphosphorylase -
  PK654_RS12940 (PK654_12940) pilA 2770799..2771212 (+) 414 WP_271696184.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  PK654_RS12945 (PK654_12945) pilB 2771218..2772429 (+) 1212 WP_271696185.1 ATPase, T2SS/T4P/T4SS family Machinery gene
  PK654_RS12950 (PK654_12950) - 2772430..2773653 (+) 1224 WP_271696186.1 type II secretion system F family protein -
  PK654_RS12955 (PK654_12955) pilD 2773687..2774556 (+) 870 WP_271696187.1 A24 family peptidase Machinery gene
  PK654_RS12960 (PK654_12960) coaE 2774558..2775169 (+) 612 WP_271696188.1 dephospho-CoA kinase -
  PK654_RS12965 (PK654_12965) zapD 2775195..2775935 (+) 741 WP_271696189.1 cell division protein ZapD -
  PK654_RS12970 (PK654_12970) yacG 2775993..2776184 (+) 192 WP_271696190.1 DNA gyrase inhibitor YacG -
  PK654_RS12975 (PK654_12975) rplS 2776277..2776630 (-) 354 WP_271696191.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 403 a.a.        Molecular weight: 44727.45 Da        Isoelectric Point: 6.6794

>NTDB_id=776864 PK654_RS12945 WP_271696185.1 2771218..2772429(+) (pilB) [Vibrio sp. SCSIO 43137]
MTEKTPDLVLSANMLNSDPVSQYLLKIVMDAVSDGASDIHFEPYQHCYRIRVRCDGILINRETPPTHFTRRFASLIKVLA
KMDISESRLPQDGHVQLQLSHDSTLDMRVSTLPCQWGEKLVLRLQDKKASAFSVNELGFNRQQQKLFLKAIKHSQGMVII
TGPTGSGKTATLYTALDILNREELNICTAENPVEIDISGINQVEVNEKTGLSFSLALKSFLRQDPDIIMLGEIRDNETAA
IAIKSAQTGHLLLTTLHSNSTVEALGRLSNMGISSFNLLESLILVIAQRLVRRLCPSCKTTSSLSEQQSQALGFKSDKAI
FRANASGCEQCKAGYKGRIGLFEMLWLDQELKSAIRQNIPPSQLCAIAQQQGMQTLKESAFYLIADGLTSLDEIQRVIDI
EEC

Nucleotide


Download         Length: 1212 bp        

>NTDB_id=776864 PK654_RS12945 WP_271696185.1 2771218..2772429(+) (pilB) [Vibrio sp. SCSIO 43137]
ATGACAGAGAAAACGCCAGACTTAGTATTATCAGCCAACATGCTTAACAGTGATCCTGTCAGCCAATATCTGCTTAAGAT
AGTAATGGATGCTGTATCTGACGGAGCTTCCGATATCCACTTCGAGCCCTACCAGCATTGCTATCGCATAAGAGTACGCT
GTGACGGGATCCTGATTAACAGAGAAACTCCGCCCACTCACTTCACCAGACGATTTGCCTCTCTTATTAAGGTACTGGCT
AAAATGGATATCTCAGAGAGCCGCCTGCCGCAGGATGGCCACGTTCAATTGCAGTTGAGTCACGACAGCACTCTGGATAT
GCGGGTATCGACACTACCCTGCCAGTGGGGAGAAAAACTGGTACTCAGACTGCAGGATAAAAAGGCCTCTGCTTTTTCCG
TCAATGAACTGGGGTTTAACCGGCAACAACAGAAATTATTTCTGAAGGCAATAAAACACTCTCAGGGTATGGTCATTATT
ACCGGCCCTACCGGAAGCGGAAAAACCGCCACCCTCTATACCGCTCTGGATATTCTTAACCGGGAGGAGCTGAATATCTG
CACCGCAGAGAACCCTGTAGAGATAGATATCAGCGGCATTAATCAGGTAGAGGTAAATGAAAAAACAGGCCTGAGTTTCT
CTTTAGCTCTGAAGAGCTTTCTCAGACAAGATCCTGACATCATTATGCTGGGCGAAATCCGCGATAATGAAACGGCGGCT
ATAGCAATAAAATCAGCTCAAACCGGACATCTGCTATTAACCACCCTACACAGCAACTCAACCGTAGAAGCGCTAGGGCG
CCTTAGCAATATGGGCATTTCATCATTTAATCTGCTTGAGTCACTGATTCTTGTCATAGCTCAGAGACTGGTACGGCGCT
TATGTCCCAGTTGCAAAACGACCAGCTCCCTGTCAGAGCAGCAGTCACAAGCATTAGGTTTCAAAAGTGATAAAGCAATT
TTTCGCGCCAACGCTTCCGGCTGCGAGCAGTGTAAAGCAGGCTATAAAGGACGTATTGGTCTGTTTGAAATGCTCTGGCT
GGATCAAGAGTTAAAAAGCGCCATCCGGCAAAATATCCCTCCTTCACAGCTTTGTGCTATTGCACAACAACAAGGAATGC
AGACATTAAAAGAGAGTGCTTTCTACTTAATTGCAGATGGCCTTACTAGTCTGGATGAAATACAACGTGTTATTGATATT
GAGGAGTGTTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(26-293)


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

53.525

95.037

0.509
  pilB Vibrio parahaemolyticus RIMD 2210633

53.264

95.037

0.506
  pilB Vibrio campbellii strain DS40M4

52.742

95.037

0.501
  pilB Legionella pneumophila strain ERS1305867

50.761

97.767

0.496
  pilB Acinetobacter baumannii D1279779

49.091

95.533

0.469
  pilB Acinetobacter baylyi ADP1

48.831

95.533

0.466
  pilF Neisseria gonorrhoeae MS11

48.177

95.285

0.459
  pilB Glaesserella parasuis strain SC1401

43.377

95.533

0.414
  pilB Haemophilus influenzae 86-028NP

42.268

96.278

0.407
  pilB Haemophilus influenzae Rd KW20

41.514

95.037

0.395
  pilF Thermus thermophilus HB27

40.625

95.285

0.387
  pilB/pilB1 Synechocystis sp. PCC 6803

37.561

100

0.382