Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   J4N40_RS03190 Genome accession   NZ_CP071840
Coordinates   649714..651399 (-) Length   561 a.a.
NCBI ID   WP_115386281.1    Uniprot ID   -
Organism   Vibrio sp. SCSIO 43097     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 644714..656399
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J4N40_RS03165 (J4N40_03165) yacG 645797..645991 (-) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  J4N40_RS03170 (J4N40_03170) zapD 646150..646890 (-) 741 WP_005373086.1 cell division protein ZapD -
  J4N40_RS03175 (J4N40_03175) coaE 646918..647532 (-) 615 WP_017635920.1 dephospho-CoA kinase -
  J4N40_RS03180 (J4N40_03180) pilD 647533..648402 (-) 870 WP_025768182.1 A24 family peptidase Machinery gene
  J4N40_RS03185 (J4N40_03185) pilC 648467..649690 (-) 1224 WP_017635918.1 type II secretion system F family protein Machinery gene
  J4N40_RS03190 (J4N40_03190) pilB 649714..651399 (-) 1686 WP_115386281.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J4N40_RS03195 (J4N40_03195) - 651399..651833 (-) 435 WP_029803401.1 pilin -
  J4N40_RS03205 (J4N40_03200) nadC 652097..652984 (-) 888 WP_115386280.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J4N40_RS03210 (J4N40_03205) ampD 653077..653628 (+) 552 WP_042521337.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  J4N40_RS03215 (J4N40_03210) pdhR 654034..654801 (+) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


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

>NTDB_id=548160 J4N40_RS03190 WP_115386281.1 649714..651399(-) (pilB) [Vibrio sp. SCSIO 43097]
MQTNLSTILRQKGLLAFSQEESLLEQVKASGISMPEALLSSGLFTSRELTEHLNSIFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQAEDDFRFATGLQIELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLNLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=548160 J4N40_RS03190 WP_115386281.1 649714..651399(-) (pilB) [Vibrio sp. SCSIO 43097]
ATGCAAACCAACCTCTCCACGATTCTTCGTCAAAAAGGACTATTGGCTTTTTCCCAAGAAGAATCGTTGCTTGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTGCTCAGTTCAGGGTTATTTACATCACGCGAACTCACTGAACATTTAA
ATTCTATTTTTGGATTAAATCAGCCCGAGTTATCTCAGTACGAGTACGCCTCGCTTTGTCAGCAACTTGGCCTTAGGGAA
TTAATCACACGGCATAACGCACTCCCACTCCAGCGTACACCTTCAACGTTATTATTAGCCGTTGCCGACCCCACGAACCA
ACAAGCAGAAGACGATTTCCGCTTTGCCACTGGTTTACAGATTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAGAAGTCCGGGTTAAAAGAGATCAACCAAGAAGAGTTAGCCAAT
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGTGTGCGCC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTACCGACTCTATTCGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACCGGGAGCGGAAAAACCGTTTCTCTGTACACTGGGCTGAGTATCCTCAATAAGCCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTCTTACGTCAAGACCCGGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACC
GCCGAAATCGCTATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTACATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAATTTGATTATTGCCCAGCGCTTGGCCC
GTAAACTGTGCTCGCACTGTAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTTGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGTAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGAATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCCTCAGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
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