Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NI391_RS12225 Genome accession   NZ_CP099951
Coordinates   2697488..2699173 (+) Length   561 a.a.
NCBI ID   WP_064354290.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain Isc25B     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2692488..2704173
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NI391_RS12205 (NI391_12215) pdhR 2694072..2694839 (-) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  NI391_RS12210 (NI391_12220) ampD 2695245..2695796 (-) 552 WP_042521337.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NI391_RS12215 (NI391_12225) nadC 2695889..2696776 (+) 888 WP_064354288.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NI391_RS12220 (NI391_12230) - 2697038..2697481 (+) 444 WP_064354289.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  NI391_RS12225 (NI391_12235) pilB 2697488..2699173 (+) 1686 WP_064354290.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NI391_RS12230 (NI391_12240) pilC 2699197..2700420 (+) 1224 WP_017635918.1 type II secretion system F family protein Machinery gene
  NI391_RS12235 (NI391_12245) pilD 2700485..2701354 (+) 870 WP_064354291.1 A24 family peptidase Machinery gene
  NI391_RS12240 (NI391_12250) coaE 2701355..2701969 (+) 615 WP_064354292.1 dephospho-CoA kinase -
  NI391_RS12245 (NI391_12255) zapD 2701997..2702737 (+) 741 WP_005373086.1 cell division protein ZapD -
  NI391_RS12250 (NI391_12260) yacG 2702896..2703090 (+) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  NI391_RS12255 (NI391_12265) rplS 2703574..2703927 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62137.88 Da        Isoelectric Point: 5.3988

>NTDB_id=702843 NI391_RS12225 WP_064354290.1 2697488..2699173(+) (pilB) [Vibrio alginolyticus strain Isc25B]
MLTNLSTILRQKGVLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELADHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTSSTLLLAVADPTNQQAEDDFRFATGLQVELVLGDFSQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLNLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=702843 NI391_RS12225 WP_064354290.1 2697488..2699173(+) (pilB) [Vibrio alginolyticus strain Isc25B]
ATGTTAACAAACCTCTCAACCATTCTTCGTCAAAAAGGAGTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGTGAGCTCGCTGATCACTTAA
GTTCTCTCTTTGGTTTAAATCAGCCCGAGTTATCTCAGTACGAGTACGCTTCGCTTTGTCAACAACTCGGTCTACGTGAA
TTAATCACACGACATAACGCACTCCCACTCCAGCGTACGTCTTCAACGTTATTACTCGCCGTTGCCGACCCCACCAACCA
ACAAGCAGAAGATGATTTTCGCTTTGCCACTGGTTTACAGGTTGAATTGGTCTTGGGGGATTTTAGTCAACTCAGCGCGG
CAATTCGACGCTTGTATGGTCGTTCATTGAGTCATGAGAAGTCCGGGTTAAAAGAGATCAACCAAGAAGAGTTAGCCAAT
CTGGTTGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTGCGCC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAACTTGATATTGCAGAGCGGCGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTACCGACTCTATTCGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACAGGGAGCGGTAAAACCGTTTCTCTATACACTGGGCTAAGTATCCTCAATAAGCCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTCTTACGTCAAGACCCGGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACC
GCCGAAATCGCTATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTGCATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAATTTGATTATTGCCCAGCGCTTGGCCC
GTAAACTGTGCTCGCACTGTAAACAATCACAAGAGCTTACCGTTCAGCTACAACACCTTGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGTAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGTGCCTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGTGTACTTTAT
TTTTAA

Domains

Predicted by InterproScan.

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

(38-144)

Type II/IV secretion system protein (T2SSE)

(188-455)


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 parahaemolyticus RIMD 2210633

95.365

100

0.954
  pilB Vibrio campbellii strain DS40M4

89.84

100

0.898
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.224

94.652

0.485
  pilB Legionella pneumophila strain ERS1305867

49.353

96.435

0.476
  pilB Acinetobacter baylyi ADP1

50.29

92.157

0.463
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.394

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.508

100

0.369
  pilF Thermus thermophilus HB27

35.943

100

0.36