Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EPB58_RS19010 Genome accession   NZ_CP035693
Coordinates   1886601..1888286 (-) Length   561 a.a.
NCBI ID   WP_005446257.1    Uniprot ID   -
Organism   Vibrio harveyi strain 2011V-1164     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1881601..1893286
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EPB58_RS18980 rplS 1881843..1882196 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  EPB58_RS18985 yacG 1882762..1882962 (-) 201 WP_026000212.1 DNA gyrase inhibitor YacG -
  EPB58_RS18990 zapD 1883019..1883759 (-) 741 WP_038897986.1 cell division protein ZapD -
  EPB58_RS18995 coaE 1883787..1884401 (-) 615 WP_154203413.1 dephospho-CoA kinase -
  EPB58_RS19000 pilD 1884402..1885271 (-) 870 WP_005446255.1 A24 family peptidase Machinery gene
  EPB58_RS19005 pilC 1885344..1886567 (-) 1224 WP_154203414.1 type II secretion system F family protein Machinery gene
  EPB58_RS19010 pilB 1886601..1888286 (-) 1686 WP_005446257.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EPB58_RS19015 pilA 1888286..1888690 (-) 405 WP_050936251.1 pilin Machinery gene
  EPB58_RS19020 nadC 1888955..1889842 (-) 888 WP_154203415.1 carboxylating nicotinate-nucleotide diphosphorylase -
  EPB58_RS19025 ampD 1889935..1890486 (+) 552 WP_154203416.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  EPB58_RS19030 pdhR 1890891..1891658 (+) 768 WP_005446261.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


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

>NTDB_id=343797 EPB58_RS19010 WP_005446257.1 1886601..1888286(-) (pilB) [Vibrio harveyi strain 2011V-1164]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRQPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=343797 EPB58_RS19010 WP_005446257.1 1886601..1888286(-) (pilB) [Vibrio harveyi strain 2011V-1164]
ATGCTAACCAACCTCTCAACGGTTCTTCGTCAAGCGGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
TAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTTCAATCTCACGAGTTGACTGAGCACCTGA
GCTCTATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGTCAAAAGCTTGGCTTGCGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCGACATTAATACTCGCAGTTGCAGACCCAACTAACTT
GCAAGCGGAAGATGACTTTCGTTTTGCTACCGGTTTACAAGTCGAGCTTGTTCTGGCGGACTTTAAAGAACTCACCGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTTAGTCGTTATATTAA
CCAAATTCTGCTCGATGCCGTTCGTAAAGGGGCTTCTGATATTCACTTCGAGCCCTATGAAAACATGTATCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAACAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGCATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGACATGCGAGTCTCCACGCTGCCAACTCTGTTTGGGGAGAAAATCGTACTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACAGGACCAACAGGCAGCGGCAAAACGGTTTCTCTTTACACTGGTTTGAGCATTCTCAATAAAACCGAGATCAA
CATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTACCTGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
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