Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NI392_RS20645 Genome accession   NZ_CP099950
Coordinates   2709640..2711325 (+) Length   561 a.a.
NCBI ID   WP_053304129.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain Isc1B     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2704640..2716325
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NI392_RS20625 (NI392_20780) pdhR 2706237..2707004 (-) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  NI392_RS20630 (NI392_20785) ampD 2707409..2707960 (-) 552 WP_053304127.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NI392_RS20635 (NI392_20790) nadC 2708053..2708940 (+) 888 WP_104975579.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NI392_RS20640 (NI392_20795) - 2709203..2709643 (+) 441 WP_017447682.1 pilin -
  NI392_RS20645 (NI392_20800) pilB 2709640..2711325 (+) 1686 WP_053304129.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NI392_RS20650 (NI392_20805) pilC 2711349..2712572 (+) 1224 WP_047102659.1 type II secretion system F family protein Machinery gene
  NI392_RS20655 (NI392_20810) pilD 2712637..2713506 (+) 870 WP_017635919.1 A24 family peptidase Machinery gene
  NI392_RS20660 (NI392_20815) coaE 2713507..2714121 (+) 615 WP_065274841.1 dephospho-CoA kinase -
  NI392_RS20665 (NI392_20820) zapD 2714149..2714889 (+) 741 WP_005373086.1 cell division protein ZapD -
  NI392_RS20670 (NI392_20825) yacG 2715048..2715242 (+) 195 WP_017635922.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62243.13 Da        Isoelectric Point: 5.5356

>NTDB_id=702803 NI392_RS20645 WP_053304129.1 2709640..2711325(+) (pilB) [Vibrio alginolyticus strain Isc1B]
MITNLSTVLRQAGLLTFSQEESLIEQVKASGISMPEALLSSGLFTSRELTEHLNSIFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTTSTLLLAVADPTNQQAEDDFRFATGLQIEMVLADFRQLSAAIRRLYGRALGQEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=702803 NI392_RS20645 WP_053304129.1 2709640..2711325(+) (pilB) [Vibrio alginolyticus strain Isc1B]
ATGATAACCAACCTCTCAACGGTTCTTCGCCAGGCCGGGTTACTAACATTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTGCTCAGTTCAGGGTTATTTACATCACGCGAACTCACTGAACATTTAA
ATTCTATTTTTGGATTAAATCAGCCCGAGTTATCTCAGTACGAGTACGCTTCGCTTTGTCAGCAACTTGGCCTTAGGGAA
TTAATCACACGGCATAACGCACTCCCACTCCACCGTACGACTTCAACGTTATTACTCGCCGTTGCCGACCCCACGAACCA
ACAAGCAGAAGACGATTTTCGCTTTGCCACTGGTTTACAGATTGAAATGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGCCGCGCACTTGGGCAGGAAAAGTCTGGGCTAAAAGAGATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAGTCGCCCGTCAGCCGTTACATAAA
CCAAATTCTGCTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGCGTGCGCC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTGCCTACTCTATTTGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCATCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACCGGGAGCGGAAAAACCGTATCTCTGTACACTGGGCTGAGTATCCTCAATAAGCCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCACTGCGCTCTTTCTTGCGTCAAGACCCGGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACT
GCGGAAATAGCCATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTACATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAGTTTGATTATTGCCCAGCGCTTAGCCC
GTAAACTGTGCTCGCACTGCAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTCGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGCAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGTGCCTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
TTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-142)


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

94.652

100

0.947
  pilB Vibrio campbellii strain DS40M4

90.196

100

0.902
  pilB Vibrio cholerae strain A1552

74.199

100

0.743
  pilB Acinetobacter baumannii D1279779

51.346

92.692

0.476
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  pilB Acinetobacter baylyi ADP1

51.852

86.631

0.449
  pilF Neisseria gonorrhoeae MS11

43.972

100

0.442
  pilB/pilB1 Synechocystis sp. PCC 6803

37.983

100

0.403
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.491

100

0.371
  pilF Thermus thermophilus HB27

35.943

100

0.36