I. Summary

SecReT6 ID	57
Strain	Yersinia pestis biovar Microtus str. 91001
Replicon	chromosome [Browse all T6SS(s) in this replicon]
Accession	NC_005810
Location	3054348..3073862
Comment
Function	N/A
T6SS Type	Type i; subtype i3
Bioinformatics investigation has been performed on this T6SS.

II. T6SS components

Component	TssH	TssD	TssL	TssI	TssA	TssB	TssC	TssE	TssF
Number	0	1	0	0	0	1	1	0	0
Component	TssG	TssJ	TssK	TssM
Number	0	1	1	0

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	YP_2749 (ndk)	3050457..3050885 [-], 429	45442521	nucleoside diphosphate kinase
2	YP_2750	3051212..3053632 [-], 2421	45442522	hypothetical protein
3	YP_2751	3053807..3054064 [+], 258	45442523	hypothetical protein
4	YP_2752 (yapA)	3054348..3058832 [+], 4485	45442524	autotransporter protein
5	YP_2754	3060117..3061325 [-], 1209	45442525	transposase for the IS285 insertion element
6	YP_2756 (fimA5)	3062525..3063133 [+], 609	45442526	fimbrial protein
7	YP_2757	3063217..3063762 [+], 546	45442527	hypothetical protein	TssB
8	YP_2758	3063765..3065288 [+], 1524	45442528	hypothetical protein	TssC
9	YP_2759	3065530..3066099 [+], 570	45442529	hypothetical protein	TssD
10	YP_2760	3066313..3066912 [+], 600	45442530	hypothetical protein	TssJ
11	YP_2761	3066916..3068265 [+], 1350	45442531	hypothetical protein	TssK
12	YP_2763	3068944..3069966 [+], 1023	45442532	transposase for insertion sequence IS100
13	YP_2764 (dnaC_21)	3069963..3070745 [+], 783	45442533	transposase/IS protein
14	YP_2766 (fUI1)	3071341..3072852 [+], 1512	45442534	permease
15	YP_2767 (dnaQ)	3073098..3073862 [-], 765	45442535	DNA polymerase III subunit epsilon
16	YP_2768 (rnhA)	3073932..3074396 [+], 465	45442536	ribonuclease H
17	YP_2769 (smtA8)	3074451..3075170 [-], 720	45442537	hypothetical protein
18	YP_2770 (gloB3)	3075128..3075970 [+], 843	45442538	hydroxyacylglutathione hydrolase
19	YP_2771 (mltD)	3076003..3077430 [+], 1428	229220778	membrane-bound lytic murein transglycosylase D
20	YP_2772	3077473..3078255 [-], 783	45442540	hypothetical protein

 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.

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

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

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

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

Job_id: Replicon RefSeq: T6SS Region Start (bp): T6SS Region End (bp): Upstream Region (kb): Downstream Region (kb):

Homology Effector list

ROD_27741 , ECA2866

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	YP_2759	3065530..3066099 [+], 570	45442529	hypothetical protein	ROD_27741
2	YP_3069(hcp7)	3402632..3403150 [+], 519	45442824	hypothetical protein	ECA2866

Download FASTA format files

Proteins        Genes

N/A

(1) 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]

This literature contains bioinformatics investigation