Detailed information of component protein


Summary

Component ID T6CP000367
Component protein type TssD
T6SS ID (Type) T6SS00044 experimental (Type i5)
Strain Vibrio parahaemolyticus RIMD 2210633
Replicon chromosome II
Sequence Protein sequence (160 a.a.); Nucleotide sequence (480 bp)
Reference
[1] Ma L, Zhang Y, Yan X, et al. Expression of the type VI secretion system 1 component Hcp1 is indirectly repressed by OpaR in Vibrio parahaemolyticus. ScientificWorldJournal. 2012;2012:982140. doi: 10.1100/2012/982140. Epub 2012 Jul 31. PMID: 22924031
[2] Yu Y, Yang H, Li J, et al. Putative type VI secretion systems of Vibrio parahaemolyticus contribute to adhesion to cultured cell monolayers. Arch Microbiol. 2012 Oct;194(10):827-35. Epub 2012 Apr 26. PMID: 22535222
[3] Salomon D, Gonzalez H, Updegraff BL, et al. Vibrio parahaemolyticus type VI secretion system 1 is activated in marine conditions to target bacteria, and is differentially regulated from system 2. PLoS One. 2013 Apr 16;8(4):e61086. doi: 10.1371/journal.pone.0061086. Print 2013. PMID: 23613791
[4] Boyer F, Fichant G, Berthod J, et al. Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources? BMC Genomics. 2009 Mar 12;10:104. doi: 10.1186/1471-2164-10-104. PMID: 19284603
[5] [Article in Chinese] [VPA1045 and VPA1049 of Vibrio parahaemolyticus regulate translocation of Hcp2]. Wei Sheng Wu Xue Bao. 2012 Aug 4;52(8):954-61. PMID: 23173431
[6] Wang L, Zhou D, Mao P, et al. Cell density- and quorum sensing-dependent expression of type VI secretion system 2 in Vibrio parahaemolyticus. PLoS One. 2013 Aug 15;8(8):e73363. doi: 10.1371/journal.pone.0073363. eCollection 2013. PMID: 23977385
[7] Yu Y, Fang L, Zhang Y, et al. VgrG2 of type VI secretion system 2 of Vibrio parahaemolyticus induces autophagy in macrophages. Front Microbiol. 2015 Mar 2;6:168. doi: 10.3389/fmicb.2015.00168. eCollection 2015. PMID: 25784905
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) VP_RS20100
Coordinate (Strand) 1081544..1082023 (-)
NCBI ID WP_005375967.1
RefSeq NC_004605
Uniprot ID A0A4P8G3D2_9VIBR, A0A2I3CRH4_VIBAX, S5J041_VIBPH, A0A559P044_9VIBR, Q87HD8_VIBPA, A0A7Y3Q745_9VIBR, A0A7Y3VM68_9VIBR, A0A0T7E196_9VIBR, C0LZR3_VIBAL, A0A072J8B2_VIBPH, D0X0J5_VIBAL
KEGG ID vnl:D3H41_17720, vpf:M634_23055, vpa:VPA1027, vag:N646_4398
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_HCP PF05638.14 1.2e-28 6..133
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-159 MQSNTYLKYADIKGEATAEQYKDLITLLSVDWSVGREISSYTGTAMDREASATRLYDLTITKLQDRSSPDLFKEATIGKGKPAVFHITKQGEKVEEIMKIELTDAMISNYSVSIQDDRPVETITISYTEMMMTVTPTDDKNNTSAPLVYGYSGVKGQQM


Signal peptides
  • Sec/SPI: "standard" secretory signal peptides transported by the Sec translocon and cleaved by Signal Peptidase I (Lep).
  • Sec/SPII: lipoprotein signal peptides transported by the Sec translocon and cleaved by Signal Peptidase II (Lsp).
  • Tat/SPI: Tat signal peptides transported by the Tat translocon and cleaved by Signal Peptidase I (Lep).
Prediction        Probability Cleavage site Signal peptide sequence
Other 0.9833 - -


  Protein sequence: 160 a.a.    

>T6CP000367 NC_004605:c1082023-1081544 [Vibrio parahaemolyticus RIMD 2210633] [TssD]
MQSNTYLKYADIKGEATAEQYKDLITLLSVDWSVGREISSYTGTAMDREASATRLYDLTITKLQDRSSPDLFKEATIGKG
KPAVFHITKQGEKVEEIMKIELTDAMISNYSVSIQDDRPVETITISYTEMMMTVTPTDDKNNTSAPLVYGYSGVKGQQM*

  Nucleotide sequence: 480 bp    

>T6CP000367 NC_004605:c1082023-1081544 [Vibrio parahaemolyticus RIMD 2210633] [TssD]
ATGCAGTCTAATACGTATCTTAAATACGCAGATATTAAAGGTGAAGCGACAGCGGAACAATATAAGGATTTAATTACACT
ACTATCTGTAGATTGGAGTGTTGGTCGTGAAATTTCTTCTTACACGGGTACAGCAATGGACCGTGAAGCAAGTGCAACAC
GCCTATATGATTTAACTATCACTAAACTTCAAGATCGTTCGTCTCCTGATCTATTCAAGGAAGCAACAATCGGTAAAGGT
AAACCTGCAGTATTCCACATCACTAAGCAGGGCGAAAAAGTTGAAGAAATCATGAAAATCGAACTGACTGATGCGATGAT
TTCTAACTACTCAGTATCGATTCAAGATGATCGCCCAGTAGAAACTATCACAATTTCATACACTGAAATGATGATGACAG
TGACACCTACTGATGACAAAAACAACACTTCTGCTCCGTTGGTTTACGGTTACAGCGGTGTTAAAGGTCAACAAATGTAA