SecReT6
I. Summary
SecReT6 ID86 experimental
StrainPseudomonas syringae pv. syringae B728a
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_007005
Location5866174..5915475
Comment
Functioneffector translocation;adherence
T6SS TypeType i; subtype i4b
experimental Experimental investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111211111
ComponentTssGTssJTssKTssM
Number1112
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PSYR_RS256955863519..5863959 [+], 441489497017hypothetical protein 
2PSYR_RS257005864093..5866027 [-], 19351818933479RecQ family ATP-dependent DNA helicase 
3PSYR_RS257055866174..5866995 [+], 822499588543hypothetical protein 
4PSYR_RS257105867626..5869797 [-], 2172499588544M48 family metalloprotease 
5PSYR_RS257155870498..5871247 [+], 750489497002hypothetical protein 
6PSYR_RS25720 (tssB)5871317..5871850 [+], 534489412292type VI secretion system contractile sheath small subunit 
7PSYR_RS25725 (tssC)5871865..5873367 [+], 1503489438120type VI secretion system contractile sheath large subunit 
8PSYR_RS25730 (tssE)5873395..5873877 [+], 483489412290type VI secretion system baseplate subunit TssE 
9PSYR_RS25735 (tssF)5873877..5875709 [+], 1833489438122type VI secretion system baseplate subunit TssF 
10PSYR_RS25740 (tssG)5875673..5876743 [+], 1071499588546type VI secretion system baseplate subunit TssG 
11PSYR_RS25745 (tssH)5876740..5879343 [+], 2604499588547type VI secretion system ATPase TssH 
12PSYR_RS25750 (tssJ)5879369..5880124 [+], 756499588548type VI secretion system lipoprotein TssJ 
13PSYR_RS25755 (tssK)5880121..5881464 [+], 1344489438132type VI secretion system baseplate subunit TssK 
14PSYR_RS25760 (icmH)5881461..5882174 [+], 714489412865type IVB secretion system protein IcmH/DotU 
15PSYR_RS257655882205..5886137 [+], 3933499588549hypothetical protein 
16PSYR_RS25770 (tagF)5886169..5887092 [+], 924489496989type VI secretion system-associated protein TagF 
17PSYR_RS25775 (tssM)5887089..5889581 [+], 2493499588550type VI secretion system membrane subunit TssM 
18PSYR_RS257805889737..5890255 [+], 519489412870type VI secretion system tube protein Hcp 
19PSYR_RS25785 (tssA)5890348..5891442 [+], 1095489438142type VI secretion system protein TssA 
20PSYR_RS257905891620..5892045 [+], 426499588551DUF2628 domain-containing protein 
21PSYR_RS257955892198..5892530 [+], 333499588552hypothetical protein 
22PSYR_RS258005892619..5892873 [+], 255489496979PAAR domain-containing protein 
23PSYR_RS258055892924..5894978 [+], 2055499588554phospholipase 
24PSYR_RS258105894981..5896006 [+], 10261818933480sel1 repeat family protein 
25PSYR_RS258155896106..5897137 [+], 1032499588556sel1 repeat family protein 
26PSYR_RS258205897201..5898283 [+], 1083499588557hypothetical protein 
27PSYR_RS258255898317..5901193 [+], 2877499588558type VI secretion system tip protein VgrG 
28PSYR_RS258305901334..5902053 [+], 720499588559hypothetical protein 
29PSYR_RS258355902118..5902672 [-], 555499588560bifunctional (p)ppGpp synthetase/guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase 
30PSYR_RS258405902749..5903081 [-], 3331168044597ADP-ribosylglycohydrolase family protein 
31PSYR_RS258455903248..5904363 [-], 11161818933481ADP-ribosylglycohydrolase family protein 
32PSYR_RS258505904412..5904711 [-], 300499588562hypothetical protein 
33PSYR_RS258555905568..5905873 [-], 306639468722hypothetical protein 
34PSYR_RS258605906460..5907503 [+], 1044639487481hypothetical protein 
35PSYR_RS258655907500..5908228 [+], 729499588566hypothetical protein 
36PSYR_RS25870 (tssI)5908301..5910145 [+], 1845499588567type VI secretion system tip protein VgrG 
37PSYR_RS258755910157..5910738 [+], 582499588568DcrB-related protein 
38PSYR_RS258805910773..5911240 [+], 468489412886DUF1795 domain-containing protein 
39PSYR_RS258855911246..5915475 [+], 4230499588569RHS domain-containing protein 
40PSYR_RS258905915482..5916090 [+], 609489492099DUF1963 domain-containing protein 
41PSYR_RS258955916361..5917695 [+], 13351818933532RHS domain-containing protein 
42PSYR_RS259005917683..5918153 [+], 471489412892hypothetical protein 
 
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
Psyr_4965

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

Download FASTA format files
Proteins        Genes
N/A
Regulatory element identified
RetS
RegulatorDescriptionReference
RetS (Psyr_4408)RepressorPMID: 20472799

LadS
RegulatorDescriptionReference
LadS (Psyr_4339)ActivatorPMID: 20472799

GacS
RegulatorDescriptionReference
GacS (Psyr_3698)ActivatorPMID: 20472799

(1) Barret M et al. (2011). Genomic analysis of the type VI secretion systems in Pseudomonas spp.: novel clusters and putative effectors uncovered. Microbiology. 157(Pt 6):1726-39. [PudMed:21474537] in_silico
(2) Sarris PF et al. (2010). In silico analysis reveals multiple putative type VI secretion systems and effector proteins in Pseudomonas syringae pathovars. Mol Plant Pathol. 11(6):795-804. [PudMed:21091602] in_silico
(3) Records AR et al. (2010). Sensor kinases RetS and LadS regulate Pseudomonas syringae type VI secretion and virulence factors. J Bacteriol. 192(14):3584-96. [PudMed:20472799] experimental
(4) 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