Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AL538_RS07085 Genome accession   NZ_CP014038
Coordinates   1395428..1397113 (+) Length   561 a.a.
NCBI ID   WP_061065378.1    Uniprot ID   -
Organism   Vibrio harveyi strain FDAARGOS_107     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1390428..1402113
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AL538_RS07060 (AL538_06485) pdhR 1392020..1392787 (-) 768 WP_009699648.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  AL538_RS07065 (AL538_06490) ampD 1393192..1393743 (-) 552 WP_061065375.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  AL538_RS07070 (AL538_06495) nadC 1393836..1394723 (+) 888 WP_061065376.1 carboxylating nicotinate-nucleotide diphosphorylase -
  AL538_RS07080 (AL538_06505) - 1394988..1395428 (+) 441 WP_061065377.1 pilin -
  AL538_RS07085 (AL538_06510) pilB 1395428..1397113 (+) 1686 WP_061065378.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AL538_RS07090 (AL538_06515) pilC 1397147..1398370 (+) 1224 WP_005446256.1 type II secretion system F family protein Machinery gene
  AL538_RS07095 (AL538_06520) pilD 1398443..1399312 (+) 870 WP_061065379.1 prepilin peptidase Machinery gene
  AL538_RS07100 (AL538_06525) coaE 1399313..1399927 (+) 615 WP_061065380.1 dephospho-CoA kinase -
  AL538_RS07105 (AL538_06530) zapD 1399955..1400695 (+) 741 WP_005446251.1 cell division protein ZapD -
  AL538_RS07110 (AL538_06535) yacG 1400758..1400952 (+) 195 WP_005446249.1 DNA gyrase inhibitor YacG -
  AL538_RS07115 (AL538_06540) rplS 1401319..1401672 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 61988.75 Da        Isoelectric Point: 5.2849

>NTDB_id=167770 AL538_RS07085 WP_061065378.1 1395428..1397113(+) (pilB) [Vibrio harveyi strain FDAARGOS_107]
MLSNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYESMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRQPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=167770 AL538_RS07085 WP_061065378.1 1395428..1397113(+) (pilB) [Vibrio harveyi strain FDAARGOS_107]
ATGCTAAGCAACCTTTCAACGGTTCTTCGCCAAGCAGGAATACTGACTTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTGCTCAGTTCTGGCTTTTTCCAATCTCATGAATTGACTGAGCACCTTA
GCTCCATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGCCAAAAGCTTGGCTTACGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCCACATTAATACTTGCGGTTGCAGACCCAACTAACTT
GCAAGCGGAAGATGACTTTCGTTTTGCTACCGGCTTACAAGTCGAGCTAGTTCTGGCGGATTTTAAAGAACTCACTGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAGGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTCAGTCGTTATATTAA
CCAAATTCTGCTCGACGCCGTTCGTAAAGGGGCTTCCGATATTCACTTCGAGCCCTATGAAAGCATGTATCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAACAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGCATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGACATGCGAGTCTCCACGCTGCCAACTCTGTTTGGGGAGAAAATCGTACTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACAGGACCAACGGGCAGCGGCAAAACGGTTTCTCTTTACACTGGTTTGAGCATTCTCAATAAAACCGAGATCAA
CATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTACCCGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
GCTTTGCAGAAGCGCTTCGCTCTTTCTTACGTCAAGATCCCGATGTAGTCATGGTGGGTGAGATCCGAGATCTCGACACG
GCAGAAATCGCGATCAAAGCGTCACAAACCGGACACTTAGTCCTTTCTACCCTGCATACCAACTCCGCCGCCGAGACGGT
CATTCGCTTATCAAATATGGGGGTAGAAAGCTTTAACCTCGCATCCTCTCTTAGCTTGATCATCGCTCAGCGTTTAGCAC
GAAAGCTTTGTCCACATTGCAGACAACCTCAAGAACCTAACAGCCAACTTCAACATATTGGAATTACCAGCACTGAAGAT
ATCTTCCAAGCGAATCCTGATGGTTGTAACGAATGCACCCAAGGATACTCTGGTCGCACTGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTATCAAATGCGCTCATCAAAGGCGCTTCAGTACATGAATTAGAAAAGCTAGCGATTGCCAATGGTA
TGCAGACTCTACAAATGTCCGGCATTGAAAAGCTCAAACAAGGCGTCACCAGCTTTAGTGAGCTGCAACGCGTTCTCTAT
TTTTAA

Domains

Predicted by InterproScan.

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

(38-142)

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 campbellii strain DS40M4

96.257

100

0.963
  pilB Vibrio parahaemolyticus RIMD 2210633

89.84

100

0.898
  pilB Vibrio cholerae strain A1552

72.776

100

0.729
  pilB Acinetobacter baylyi ADP1

48.294

99.287

0.479
  pilB Acinetobacter baumannii D1279779

51.838

92.157

0.478
  pilB Legionella pneumophila strain ERS1305867

48.155

96.613

0.465
  pilF Neisseria gonorrhoeae MS11

43.594

100

0.437
  pilB/pilB1 Synechocystis sp. PCC 6803

36.364

100

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.918

99.465

0.367
  pilF Thermus thermophilus HB27

36.299

100

0.364

Multiple sequence alignment