Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   J6320_RS20540 Genome accession   NZ_CP072782
Coordinates   2701212..2702897 (+) Length   561 a.a.
NCBI ID   WP_248486980.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain HY9901     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2696212..2707897
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J6320_RS20520 (J6320_20410) pdhR 2697782..2698549 (-) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  J6320_RS20525 (J6320_20415) ampD 2698955..2699506 (-) 552 WP_042521337.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  J6320_RS20530 (J6320_20420) nadC 2699599..2700486 (+) 888 WP_005379983.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J6320_RS20535 (J6320_20425) - 2700742..2701200 (+) 459 WP_154205051.1 pilin -
  J6320_RS20540 (J6320_20430) pilB 2701212..2702897 (+) 1686 WP_248486980.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J6320_RS20545 (J6320_20435) pilC 2702921..2704144 (+) 1224 WP_213886707.1 type II secretion system F family protein Machinery gene
  J6320_RS20550 (J6320_20440) pilD 2704209..2705078 (+) 870 WP_017635919.1 A24 family peptidase Machinery gene
  J6320_RS20555 (J6320_20445) coaE 2705079..2705693 (+) 615 WP_017635920.1 dephospho-CoA kinase -
  J6320_RS20560 (J6320_20450) zapD 2705721..2706461 (+) 741 WP_005373086.1 cell division protein ZapD -
  J6320_RS20565 (J6320_20455) yacG 2706620..2706814 (+) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  J6320_RS20570 (J6320_20460) rplS 2707469..2707822 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62092.91 Da        Isoelectric Point: 5.3987

>NTDB_id=555629 J6320_RS20540 WP_248486980.1 2701212..2702897(+) (pilB) [Vibrio alginolyticus strain HY9901]
MSRNLSTVLRQAGILTFSQEESLLEQVKASGISMPEALLSSELLTSSELADHLSSLFSLNQPELSQYDYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLANFRQLSAAIRRLYGRALGQEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVCKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLNLIIAQRLARKLCSHCKQSQELTVQLQHLGIQAGDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=555629 J6320_RS20540 WP_248486980.1 2701212..2702897(+) (pilB) [Vibrio alginolyticus strain HY9901]
ATGTCTAGAAACCTCTCAACCGTTCTTCGCCAAGCAGGAATACTGACCTTTTCCCAAGAAGAATCGTTGCTTGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGAATTATTGACATCAAGCGAACTCGCTGATCACTTAA
GTTCTCTCTTTAGTTTAAATCAACCCGAGTTATCTCAGTACGATTACGCTTCGCTTTGTCAGCAACTTGGTCTTAGGGAA
TTAATCACACGGCATAACGCACTCCCACTCCACCGTACGCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGGTTACAGGTTGAACTGGTCTTGGCGAATTTTCGTCAACTCAGCGCTG
CGATTCGACGCTTGTATGGCCGCGCACTTGGGCAGGAAAAGTCTGGGCTAAAAGAGATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAGTCGCCCGTCAGCCGTTACATAAA
CCAAATTCTGCTGGACGCTGTGTGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTGCGCC
TGCGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTGAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTACCGACTCTATTCGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACCGGGAGCGGAAAAACCGTTTCTCTGTACACTGGGCTGAGTATCCTCAATAAGCCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTCTTACGTCAAGACCCGGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACC
GCCGAAATCGCTATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTACATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAATTTGATTATTGCCCAGCGCTTGGCCC
GTAAACTGTGCTCGCACTGTAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTTGGAATTCAAGCAGGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGTAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCCTCAGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
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)

(39-142)


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

93.761

100

0.938
  pilB Vibrio campbellii strain DS40M4

89.305

100

0.893
  pilB Vibrio cholerae strain A1552

73.132

100

0.733
  pilB Acinetobacter baumannii D1279779

51.81

93.583

0.485
  pilB Legionella pneumophila strain ERS1305867

48.566

99.465

0.483
  pilB Acinetobacter baylyi ADP1

50.895

89.661

0.456
  pilF Neisseria gonorrhoeae MS11

44.326

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

37.856

100

0.403
  pilF Thermus thermophilus HB27

36.332

100

0.367
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.364

100

0.364