SecReT6
I. Summary
SecReT6 ID44 experimental
StrainVibrio parahaemolyticus RIMD 2210633
Repliconchromosome II [Browse all T6SS(s) in this replicon]
AccessionNC_004605
Location1074208..1108114
CommentAdhesion to cultured cell monolayers
Functionanti-eukaryotic;effector translocation;adherence
T6SS TypeType i; subtype i5
experimental Experimental investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111111211
ComponentTssGTssJTssKTssM
Number1111
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1VP_RS200451069624..1070757 [-], 1134491622806multidrug effflux MFS transporter 
2VP_RS200501070897..1071676 [+], 780499418940helix-turn-helix transcriptional regulator 
3VP_RS200551071695..1072216 [-], 522491606277lipocalin family protein 
4VP_RS200601072272..1072799 [-], 528491606274histidine phosphatase family protein 
5VP_RS200651072830..1073354 [-], 525491622783AAA family ATPase 
6VP_RS200701073763..1074143 [+], 381491622787pyruvate dehydrogenase 
7VP_RS200751074208..1077264 [-], 3057491622820SMC family ATPase 
8VP_RS200801077274..1078407 [-], 1134491622691exonuclease SbcCD subunit D 
9VP_RS200851078504..1079346 [-], 843491622703hypothetical protein 
10VP_RS200901079347..1079637 [-], 291491641481PAAR domain-containing protein 
11VP_RS20095 (tssI)1079651..1081486 [-], 1836491622722type VI secretion system tip protein VgrG 
12VP_RS201001081544..1082023 [-], 480491518336type VI secretion system tube protein Hcp 
13VP_RS20105 (tssH)1082229..1084796 [-], 2568491622755type VI secretion system ATPase TssH 
14VP_RS20110 (tssG)1084807..1085772 [-], 966491622753type VI secretion system baseplate subunit TssG 
15VP_RS20115 (tssF)1085769..1087592 [-], 1824491606259type VI secretion system baseplate subunit TssF 
16VP_RS20120 (tssE)1087589..1088053 [-], 465491606257type VI secretion system baseplate subunit TssE 
17VP_RS201251088062..1088859 [-], 798491606255protein of avirulence locus 
18VP_RS20130 (tssC)1088870..1090381 [-], 1512491622718type VI secretion system contractile sheath large subunit 
19VP_RS20135 (tssC)1090437..1091930 [-], 1494491606251type VI secretion system contractile sheath large subunit 
20VP_RS20140 (tssB)1091930..1092460 [-], 531491606249type VI secretion system contractile sheath small subunit 
21VP_RS20145 (tssA)1092476..1093597 [-], 1122491622789type VI secretion system protein TssA 
22VP_RS201501093594..1094382 [-], 789491606245serine/threonine-protein phosphatase 
23VP_RS20155 (tagF)1094393..1095088 [-], 696491606243type VI secretion system-associated protein TagF 
24VP_RS20160 (tssM)1095070..1098588 [-], 3519491606241type VI secretion system membrane subunit TssM 
25VP_RS20165 (tssL)1098604..1099896 [-], 1293491606239type VI secretion system protein TssL, long form 
26VP_RS20170 (tssK)1099908..1101233 [-], 1326491606237type VI secretion system baseplate subunit TssK 
27VP_RS20175 (tssJ)1101255..1101710 [-], 456491606235type VI secretion system lipoprotein TssJ 
28VP_RS20180 (tagH)1101720..1102916 [-], 1197491606233type VI secretion system-associated FHA domain protein TagH 
29VP_RS201851103239..1105380 [+], 2142491622716serine/threonine protein kinase 
30VP_RS201901105492..1107027 [+], 1536491606229response regulator 
31VP_RS201951107030..1107365 [+], 336491606227hypothetical protein 
32VP_RS202001107401..1107592 [+], 192491622698hypothetical protein 
33VP_RS202051107620..1108114 [-], 495491622741ATP-binding protein 
34VP_RS202101108107..1109327 [-], 1221491606222SpoIIE family protein phosphatase 
35VP_RS202151109352..1109612 [-], 261491606219hypothetical protein 
36VP_RS202201109834..1110448 [-], 615491606217glutathione S-transferase 
37VP_RS202251110593..1111168 [+], 576491606215TetR/AcrR family transcriptional regulator 
38VP_RS202301111170..1111574 [+], 405491606213DUF296 domain-containing protein 
39VP_RS20235 (nirD)1111677..1112012 [-], 336491606211nitrite reductase small subunit NirD 
 
flank Genes in the 5-kb flanking regions if available, or non-core components encoded by the T6SS gene cluster if any. In the 'Note' column,if available, '(e)' denotes effector while '(i)' for immunity protein

Download FASTA format files
Proteins        Genes

V. Investigation of the genomic context of the T6SS gene cluster.
1. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the mobile genetic elements database, ACLAME.
 






2. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against the virulence factor database, VFDB.
 






3. BLASTp searches of the proteins encoded by T6SS gene cluster and its flanking regions against against the antibiotic resistance database, ARDB.
 







Homology Effector list
VPA1027

Effector identified
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  Homolog

Download FASTA format files
Proteins        Genes
N/A
Regulatory element identified
OpaR
RegulatorDescriptionReference
OpaR (VP2516)ActivatorPMID: 23613791

VPA1045
RegulatorDescriptionReference
VPA1045ActivatorPMID: 23173431

VPA1049
RegulatorDescriptionReference
VPA1049ActivatorPMID: 23173431

AphA
RegulatorDescriptionReference
AphARepressorPMID: 23977385

The information on regulator interaction.

#homolog effector locus tagRegulator wayFunctionRegulate targetDescription
1VP0350 (CalR/LeuO)VP1133 (H-NS).
2VP0350 (CalR/LeuO)Transcription regulator+VPA1027 (hcp2) promotorCalR activates the promoter activities of T6SS2 genes,and antagonise H-NS.
3VP0350 (CalR/LeuO)VPA1043 (Fha) promotor.
4VP1241 (TfoX)QS regulator+T6SS2TfoX specifically induces T6SS2.
(1) Yu Y et al. (2015). VgrG2 of type VI secretion system 2 of Vibrio parahaemolyticus induces autophagy in macrophages. Front Microbiol. 6:168. [PudMed:25784905] experimental
(2) Wang L et al. (2013). Cell Density- and Quorum Sensing-Dependent Expression of Type VI Secretion System 2 in Vibrio parahaemolyticus. PLoS One. 8(8):e73363. [PudMed:23977385] experimental
(3) Salomon D et al. (2013). Vibrio parahaemolyticus Type VI Secretion System 1 Is Activated in Marine Conditions to Target Bacteria, and Is Differentially Regulated from System 2. PLoS One. 8(4):e61086. [PudMed:23613791] experimental
(4) Yu Y et al. (2012). VPA1045 and VPA1049 of Vibrio parahaemolyticus regulate translocation of Hcp2. Wei Sheng Wu Xue Bao. 52(8):954-61. [PudMed:23173431] experimental
(5) Ma L et al. (2012). Expression of the Type VI Secretion System 1 Component Hcp1 Is Indirectly Repressed by OpaR in Vibrio parahaemolyticus. Scientific World Journal. 2012:982140. [PudMed:22924031] experimental
(6) Yu Y et al. (2012). Putative type VI secretion systems of Vibrio parahaemolyticus contribute to adhesion to cultured cell monolayers. Arch Microbiol. 194(10):827-35. [PudMed:22535222] experimental
(7) Boyer F et al. (2009). 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. 10:104. [PudMed:19284603] in_silico
 
experimental This literature contains experimental investigation
in_silico This literature contains bioinformatics investigation