Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACFBML_RS12825 Genome accession   NZ_CP170491
Coordinates   2845099..2846784 (+) Length   561 a.a.
NCBI ID   WP_005446257.1    Uniprot ID   -
Organism   Vibrio harveyi strain LcV6     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2840099..2851784
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACFBML_RS12805 (ACFBML_12805) pdhR 2841681..2842448 (-) 768 WP_005446261.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  ACFBML_RS12810 (ACFBML_12810) ampD 2842853..2843404 (-) 552 WP_017189135.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACFBML_RS12815 (ACFBML_12815) nadC 2843497..2844384 (+) 888 WP_053049427.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACFBML_RS12820 (ACFBML_12820) pilA 2844650..2845087 (+) 438 WP_029790345.1 pilin Machinery gene
  ACFBML_RS12825 (ACFBML_12825) pilB 2845099..2846784 (+) 1686 WP_005446257.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACFBML_RS12830 (ACFBML_12830) pilC 2846818..2848041 (+) 1224 WP_005446256.1 type II secretion system F family protein Machinery gene
  ACFBML_RS12835 (ACFBML_12835) pilD 2848114..2848983 (+) 870 WP_005446255.1 A24 family peptidase Machinery gene
  ACFBML_RS12840 (ACFBML_12840) coaE 2848984..2849598 (+) 615 WP_017817675.1 dephospho-CoA kinase -
  ACFBML_RS12845 (ACFBML_12845) zapD 2849626..2850366 (+) 741 WP_050934119.1 cell division protein ZapD -
  ACFBML_RS12850 (ACFBML_12850) yacG 2850429..2850623 (+) 195 WP_005446249.1 DNA gyrase inhibitor YacG -
  ACFBML_RS12855 (ACFBML_12855) rplS 2850912..2851265 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


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

>NTDB_id=1057687 ACFBML_RS12825 WP_005446257.1 2845099..2846784(+) (pilB) [Vibrio harveyi strain LcV6]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRQPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1057687 ACFBML_RS12825 WP_005446257.1 2845099..2846784(+) (pilB) [Vibrio harveyi strain LcV6]
GTGCTAACCAACCTTTCAACGGTTCTTCGCCAAGCTGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCACATGAATTGACTGAGCACCTTA
GCTCCATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGCCAAAAGCTTGGCTTACGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCGACATTAATACTCGCGGTTGCAGACCCAACTAACTT
ACAAGCGGAAGATGACTTTCGTTTTGCTACCGGTTTACAAGTCGAGCTAGTTCTGGCGGACTTTAAAGAACTCACCGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTTAGTCGTTATATTAA
CCAAATCCTGCTCGATGCCGTTCGTAAAGGGGCTTCTGATATTCACTTCGAGCCCTATGAAAACATGTATCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAACAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGCATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGATATGCGCGTTTCTACACTGCCAACTCTGTTTGGGGAGAAAATCGTATTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACAGGACCAACGGGCAGCGGCAAAACGGTTTCTCTTTACACTGGTTTGAGCATTCTCAATAAAACCGAGATTAA
CATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTGCCCGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
GCTTTGCAGAAGCGCTTCGCTCTTTCTTGCGTCAAGATCCCGATGTAGTCATGGTGGGTGAGATCCGAGATCTCGACACG
GCAGAAATCGCGATCAAAGCGTCACAAACTGGGCACTTAGTCCTTTCTACCCTGCATACCAACTCCGCCGCCGAGACGGT
TATTCGCTTATCAAATATGGGGGTAGAAAGCTTTAACCTCGCATCCTCTCTTAGTTTGATCATCGCTCAGCGTTTAGCAC
GAAAGCTTTGTCCACATTGCAGACAACCTCAAGAACCTAACAGCCAACTTCAACATATTGGAATTACCAGCACTGAAGAT
ATCTTCCAAGCGAATCCTGATGGTTGTAACGAATGCACCCAAGGATACTCTGGCCGCACTGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTATCAAATGCGCTCATCAAAGGCGCTTCAGTACACGAATTAGAAAAGCTAGCGATTGCCAATGGTA
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