Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   CU052_RS08830 Genome accession   NZ_CP025537
Coordinates   1816553..1818238 (-) Length   561 a.a.
NCBI ID   WP_005446257.1    Uniprot ID   -
Organism   Vibrio harveyi strain 345     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1811553..1823238
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CU052_RS08800 (CU052_09200) rplS 1811994..1812347 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  CU052_RS08805 (CU052_09205) yacG 1812714..1812908 (-) 195 WP_005446249.1 DNA gyrase inhibitor YacG -
  CU052_RS08810 (CU052_09210) zapD 1812971..1813711 (-) 741 WP_038897986.1 cell division protein ZapD -
  CU052_RS08815 (CU052_09215) coaE 1813739..1814353 (-) 615 WP_101904488.1 dephospho-CoA kinase -
  CU052_RS08820 (CU052_09220) pilD 1814354..1815223 (-) 870 WP_045488712.1 A24 family peptidase Machinery gene
  CU052_RS08825 (CU052_09225) pilC 1815296..1816519 (-) 1224 WP_005446256.1 type II secretion system F family protein Machinery gene
  CU052_RS08830 (CU052_09230) pilB 1816553..1818238 (-) 1686 WP_005446257.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CU052_RS08835 (CU052_09235) pilA 1818242..1818706 (-) 465 WP_101904489.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  CU052_RS08845 (CU052_09245) nadC 1818971..1819858 (-) 888 WP_009700089.1 carboxylating nicotinate-nucleotide diphosphorylase -
  CU052_RS08850 (CU052_09250) ampD 1819951..1820502 (+) 552 WP_017189135.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  CU052_RS08855 (CU052_09255) pdhR 1820907..1821674 (+) 768 WP_009699648.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62029.80 Da        Isoelectric Point: 5.2849

>NTDB_id=262409 CU052_RS08830 WP_005446257.1 1816553..1818238(-) (pilB) [Vibrio harveyi strain 345]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRQPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=262409 CU052_RS08830 WP_005446257.1 1816553..1818238(-) (pilB) [Vibrio harveyi strain 345]
ATGTTAACCAACCTCTCAACGGTTCTTCGTCAAGCGGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCACATGAATTGACTGAGCACCTTA
GCTCCATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGCCAAAAGCTTGGCTTACGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCCACATTAATACTTGCGGTTGCAGACCCAACTAACTT
GCAAGCGGAAGATGACTTTCGTTTTGCTACCGGCTTACAAGTCGAGCTAGTTCTGGCGGATTTTAAAGAACTCACTGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAGGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTCAGTCGTTATATTAA
CCAAATTCTGCTCGATGCCGTTCGTAAAGGGGCTTCCGATATTCACTTCGAGCCCTATGAAAACATGTACCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAGCAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGCATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGATATGCGCGTTTCTACACTGCCAACTCTGTTTGGGGAGAAAATCGTACTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACAGGACCAACGGGCAGCGGCAAAACGGTTTCTCTTTACACTGGTTTGAGCATTCTCAATAAAACCGAGATCAA
TATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTACCTGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
GCTTTGCAGAAGCGCTTCGCTCTTTCTTACGTCAAGATCCCGATGTAGTCATGGTGGGTGAGATCCGAGATCTCGACACG
GCAGAAATCGCGATCAAAGCGTCACAAACCGGACACTTAGTCCTTTCTACCCTGCATACCAACTCCGCCGCCGAGACGGT
CATTCGCTTATCAAATATGGGGGTAGAAAGCTTTAACCTCGCATCCTCTCTTAGCTTGATCATCGCTCAGCGTTTAGCAC
GAAAGCTTTGTCCACATTGCAGACAACCTCAAGAACCTAACAGCCAACTTCAACATATTGGAATTACCAGCACTGAAGAT
ATCTTCCAAGCGAATCCTGATGGTTGTAACGAATGCACCCAAGGATACTCTGGTCGCACTGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTGTCAAATGCGCTCATCAAAGGCGCTTCAGTACATGAATTAGAAAAGCTAGCGATTGCCAATGGTA
TGCAGACTCTACAAATGTCCGGCATTGAAAAGCTCAAACAAGGCGTCACCAGCTTTAGTGAGCTGCAACGCGTTCTCTAT
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 campbellii strain DS40M4

96.613

100

0.966
  pilB Vibrio parahaemolyticus RIMD 2210633

89.661

100

0.897
  pilB Vibrio cholerae strain A1552

73.132

100

0.733
  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

37.037

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.918

99.465

0.367
  pilF Thermus thermophilus HB27

36.477

100

0.365

Multiple sequence alignment