Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   K08M4_RS02795 Genome accession   NZ_CP017916
Coordinates   557734..559419 (-) Length   561 a.a.
NCBI ID   WP_086048776.1    Uniprot ID   A0AA34XMN3
Organism   Vibrio syngnathi strain K08M4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 552734..564419
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K08M4_RS02765 (K08M4_05480) rplS 553123..553476 (+) 354 WP_009847607.1 50S ribosomal protein L19 -
  K08M4_RS02770 (K08M4_05490) yacG 553892..554089 (-) 198 WP_017056605.1 DNA gyrase inhibitor YacG -
  K08M4_RS02775 (K08M4_05500) zapD 554170..554910 (-) 741 WP_086048772.1 cell division protein ZapD -
  K08M4_RS02780 (K08M4_05510) coaE 554937..555551 (-) 615 WP_086048773.1 dephospho-CoA kinase -
  K08M4_RS02785 (K08M4_05520) pilD 555554..556423 (-) 870 WP_086048774.1 A24 family peptidase Machinery gene
  K08M4_RS02790 (K08M4_05530) pilC 556492..557718 (-) 1227 WP_086048775.1 type II secretion system F family protein Machinery gene
  K08M4_RS02795 (K08M4_05540) pilB 557734..559419 (-) 1686 WP_086048776.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K08M4_RS02800 (K08M4_05550) pilA 559420..559842 (-) 423 WP_086048777.1 pilin Machinery gene
  K08M4_RS02805 (K08M4_05560) nadC 560097..560987 (-) 891 WP_017079961.1 carboxylating nicotinate-nucleotide diphosphorylase -
  K08M4_RS02810 (K08M4_05570) ampD 561071..561670 (+) 600 WP_086048778.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  K08M4_RS02820 (K08M4_05580) pdhR 562153..562914 (+) 762 WP_009847596.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62283.09 Da        Isoelectric Point: 5.0549

>NTDB_id=204053 K08M4_RS02795 WP_086048776.1 557734..559419(-) (pilB) [Vibrio syngnathi strain K08M4]
MLTNLPTVLRQAGLLSLTQEHAIAEHVQASGISTPEALLVLDIFSDESLANNIKTIFGLPLVQLANTDYEILCDQLGLRE
LITKYRAIPVAISNTTLTLASADPTDLQAEDDFRFATGLQIELVVANYSELEGAIRKLYGRSISGQDSKRKEITQDELAN
LVEVSDDEMTSIEDLSQDDSPVSRFINQILVDAVRKGASDIHFEPYEENYRVRLRCDGILVEVQQPASHLSRRLSARLKI
LAKLDIAERRLPQDGRIKLRLNDELAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYSEDQKALYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRMLNTSERNISTAEDPVEINLCGINQVQVTPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAIKASQTGHLVLSTLHTNSASETVTRLAHMGIEPFNLASSLSLIIAQRLARRLCNHCKAADNSPDIFLRHSIPNNQK
LYKATPQGCNECNQGYSGRVGIYEVMPFTDKLKNSLINKPNALEIEDLARREGMRTLQESGIDKLLEGTTSYQELQRVLY
L

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=204053 K08M4_RS02795 WP_086048776.1 557734..559419(-) (pilB) [Vibrio syngnathi strain K08M4]
GTGCTAACCAACCTCCCAACGGTTCTTCGTCAGGCTGGTTTACTTAGCCTGACTCAAGAACACGCTATTGCGGAACATGT
GCAAGCTTCAGGTATTTCTACACCTGAAGCTTTGCTTGTTCTAGACATCTTCTCTGACGAGAGCCTCGCTAATAATATAA
AAACCATTTTTGGTTTACCGTTAGTACAGCTGGCCAATACTGACTATGAAATCTTGTGTGACCAATTAGGGCTTCGTGAG
TTGATCACCAAATATCGTGCAATCCCAGTTGCCATATCTAATACTACTCTCACACTCGCTTCTGCCGACCCAACCGACTT
ACAAGCTGAAGACGATTTCCGCTTTGCCACCGGATTACAGATCGAATTAGTTGTCGCTAACTACTCAGAATTAGAAGGCG
CCATACGAAAGCTGTATGGCCGATCTATTTCCGGACAAGACTCCAAGCGCAAAGAGATCACCCAAGACGAACTCGCCAAT
CTTGTTGAAGTCTCTGACGATGAAATGACGTCAATTGAAGATCTCAGCCAAGACGACTCCCCTGTTAGCCGTTTTATCAA
CCAAATATTAGTAGATGCGGTACGCAAAGGCGCATCAGACATCCACTTCGAACCTTATGAAGAAAACTACCGAGTGCGTC
TGCGTTGCGATGGTATTCTTGTTGAGGTCCAACAGCCCGCGTCTCATTTAAGCCGTCGGTTATCCGCTCGTTTAAAGATT
CTCGCCAAACTTGATATCGCTGAACGTCGCTTACCTCAAGACGGCCGTATTAAGCTGCGTTTGAACGACGAGCTGGCGAT
CGATATGCGTGTGTCGACTCTACCGACATTGTGGGGAGAAAAGATCGTACTGCGTCTTCTAGACAGCAGCGCAGCCAATT
TAGATATCGATAAATTAGGTTACAGCGAGGATCAAAAAGCGCTCTATCTCAATGCCCTAAAACGCCCGCAAGGGATGATC
TTAATGACTGGGCCCACTGGCAGTGGCAAAACGGTATCTCTTTACACTGGACTTCGCATGCTTAACACCTCTGAGCGTAA
TATCTCAACAGCTGAAGACCCGGTGGAGATCAACCTGTGTGGTATCAATCAGGTACAGGTGACGCCAAAGATCGGTTTTG
GGTTTGCCGAAGCACTACGATCCTTCTTGCGACAAGATCCTGATGTGGTGATGGTCGGTGAGATCCGCGATTTGGAAACC
GCAGAGATCGCGATCAAAGCGTCGCAAACGGGTCACTTAGTCCTTTCGACACTCCATACTAACTCAGCTTCGGAAACCGT
GACTCGGCTCGCCCATATGGGGATAGAACCCTTTAACCTCGCTTCGTCATTAAGCCTGATTATCGCGCAGCGACTGGCAA
GGCGACTGTGCAACCACTGTAAAGCAGCTGACAACTCGCCGGACATATTTCTGCGTCACTCAATTCCTAACAATCAAAAA
CTCTACAAAGCCACCCCACAAGGATGCAATGAGTGTAATCAGGGTTACTCCGGTCGAGTGGGTATCTACGAAGTAATGCC
GTTCACCGACAAACTAAAAAATAGTCTGATCAATAAACCTAACGCGTTAGAGATTGAAGATCTCGCGCGTAGAGAAGGAA
TGAGAACACTGCAAGAATCCGGTATCGATAAGTTGCTTGAAGGCACCACCAGCTATCAAGAACTGCAACGTGTCCTGTAT
CTATAA

Domains

Predicted by InterproScan.

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

(43-141)

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 cholerae strain A1552

73.357

100

0.736
  pilB Vibrio parahaemolyticus RIMD 2210633

70.107

100

0.702
  pilB Vibrio campbellii strain DS40M4

69.929

100

0.701
  pilB Legionella pneumophila strain ERS1305867

49.005

98.574

0.483
  pilB Acinetobacter baumannii D1279779

51.06

92.513

0.472
  pilB Acinetobacter baylyi ADP1

49.031

91.979

0.451
  pilF Neisseria gonorrhoeae MS11

44.268

100

0.447
  pilF Thermus thermophilus HB27

38.772

92.87

0.36

Multiple sequence alignment