SecReT6
I. Summary
SecReT6 ID252 insolico
StrainPseudomonas putida GB-1
Repliconchromosome [Browse all T6SS(s) in this replicon]
AccessionNC_010322
Location3094169..3120406
Comment
FunctionN/A
T6SS TypeType i; subtype i4b
insolico Bioinformatics investigation has been performed on this T6SS.

II. T6SS components
ComponentTssHTssDTssLTssITssATssBTssCTssETssF
Number111111111
ComponentTssGTssJTssKTssM
Number1112
III. genome coordinates of the T6SS gene cluster
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductNote
1PputGB1_27573091606..3092325 [-], 720167033756hypothetical protein 
2PputGB1_27583092337..3093557 [-], 1221167033757PAAR repeat-containing protein  PAAR
3PputGB1_27593093554..3094147 [-], 594167033758hypothetical protein 
4PputGB1_27603094169..3096010 [-], 1842167033759ImpA family type VI secretion-associated protein  TssI
5PputGB1_27613096203..3097318 [-], 1116167033760ADP-ribosylation/crystallin J1 
6PputGB1_27623097315..3098802 [-], 1488167033761hypothetical protein 
7PputGB1_27633099710..3100459 [+], 750167033762hypothetical protein 
8PputGB1_27643100524..3101063 [+], 540167033763type VI secretion protein  TssB
9PputGB1_27653101078..3102580 [+], 1503167033764EvpB family type VI secretion protein  TssC
10PputGB1_27663102607..3103089 [+], 483167033765type VI secretion system lysozyme-like protein  TssE
11PputGB1_27673103089..3104909 [+], 1821167033766type VI secretion protein  TssF
12PputGB1_27683104873..3105943 [+], 1071167033767type VI secretion protein  TssG
13PputGB1_27693105940..3108537 [+], 2598167033768type VI secretion ATPase  TssH
14PputGB1_27703108562..3109284 [+], 723167033769hypothetical protein  TssJ
15PputGB1_27713109281..3110624 [+], 1344167033770type VI secretion protein  TssK
16PputGB1_27723110621..3111337 [+], 717167033771hypothetical protein  TssL
17PputGB1_27733111368..3115165 [+], 3798167033772type VI secretion protein IcmF  TssM
18PputGB1_27743115162..3116070 [+], 909167033773hypothetical protein 
19PputGB1_27753116067..3118562 [+], 2496167033774OmpA/MotB domain-containing protein  TssM
20PputGB1_27763118706..3119224 [+], 519167033775Hcp1 family type VI secretion system effector  TssD
21PputGB1_27773119309..3120406 [+], 1098167033776ImpA family type VI secretion-associated protein  TssA
22PputGB1_27783120521..3123037 [+], 2517167033777excinuclease ABC subunit A 
23PputGB1_27793123125..3123631 [+], 507167033778ECF subfamily RNA polymerase sigma-24 factor 
24PputGB1_27803123631..3124593 [+], 963167033779anti-FecI sigma factor FecR 
 
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
1PputGB1_27763118706..3119224 [+], 519167033775Hcp1 family type VI secretion system effector Psyr_4965

Download FASTA format files
Proteins        Genes
N/A
(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
 
in_silico This literature contains bioinformatics investigation

Genomics & Bioinformatics Group in MML, SJTU