Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   K6806_RS13045 Genome accession   NZ_CP082319
Coordinates   2735929..2737614 (+) Length   561 a.a.
NCBI ID   WP_115386281.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain XWV9     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2730929..2742614
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K6806_RS13020 (K6806_12915) pdhR 2732528..2733295 (-) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  K6806_RS13025 (K6806_12920) ampD 2733701..2734252 (-) 552 WP_005386614.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  K6806_RS13030 (K6806_12925) nadC 2734345..2735232 (+) 888 WP_238952113.1 carboxylating nicotinate-nucleotide diphosphorylase -
  K6806_RS13040 (K6806_12930) - 2735495..2735929 (+) 435 WP_029803401.1 pilin -
  K6806_RS13045 (K6806_12935) pilB 2735929..2737614 (+) 1686 WP_115386281.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K6806_RS13050 (K6806_12940) pilC 2737638..2738861 (+) 1224 WP_025768183.1 type II secretion system F family protein Machinery gene
  K6806_RS13055 (K6806_12945) pilD 2738926..2739795 (+) 870 WP_025768182.1 A24 family peptidase Machinery gene
  K6806_RS13060 (K6806_12950) coaE 2739796..2740410 (+) 615 WP_017635920.1 dephospho-CoA kinase -
  K6806_RS13065 (K6806_12955) zapD 2740438..2741178 (+) 741 WP_005373086.1 cell division protein ZapD -
  K6806_RS13070 (K6806_12960) yacG 2741337..2741531 (+) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  K6806_RS13075 (K6806_12965) rplS 2741996..2742349 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62350.23 Da        Isoelectric Point: 5.6871

>NTDB_id=601424 K6806_RS13045 WP_115386281.1 2735929..2737614(+) (pilB) [Vibrio alginolyticus strain XWV9]
MQTNLSTILRQKGLLAFSQEESLLEQVKASGISMPEALLSSGLFTSRELTEHLNSIFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQAEDDFRFATGLQIELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLNLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=601424 K6806_RS13045 WP_115386281.1 2735929..2737614(+) (pilB) [Vibrio alginolyticus strain XWV9]
ATGCAAACCAACCTCTCCACGATTCTTCGTCAAAAAGGACTATTGGCTTTTTCCCAAGAAGAATCGTTGCTTGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTGCTCAGTTCAGGGTTATTTACATCACGCGAACTCACTGAACATTTAA
ATTCTATTTTTGGATTAAATCAGCCCGAGTTATCTCAGTACGAGTACGCCTCGCTTTGTCAGCAACTTGGCCTTAGGGAA
TTAATCACACGGCATAACGCACTCCCACTCCAGCGTACACCTTCAACGTTATTATTAGCCGTTGCCGACCCCACGAACCA
ACAAGCAGAAGACGATTTCCGCTTTGCCACTGGTTTACAGATTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAGAAGTCCGGGTTAAAAGAGATCAACCAAGAAGAGTTAGCCAAT
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGTGTGCGCC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTACCGACTCTATTCGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACCGGGAGCGGAAAAACCGTTTCTCTGTACACTGGGCTGAGTATCCTCAATAAGCCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTCTTACGTCAAGACCCGGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACC
GCCGAAATCGCTATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTACATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAATTTGATTATTGCCCAGCGCTTGGCCC
GTAAACTGTGCTCGCACTGTAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTTGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGTAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGAATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCCTCAGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAGATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
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

95.187

100

0.952
  pilB Vibrio campbellii strain DS40M4

89.661

100

0.897
  pilB Vibrio cholerae strain A1552

74.377

100

0.745
  pilB Legionella pneumophila strain ERS1305867

48.387

99.465

0.481
  pilB Acinetobacter baumannii D1279779

51.538

92.692

0.478
  pilB Acinetobacter baylyi ADP1

52.058

86.631

0.451
  pilF Neisseria gonorrhoeae MS11

44.326

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

37.584

100

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.684

100

0.371
  pilF Thermus thermophilus HB27

36.299

100

0.364