I. Summary

SecReT6 ID	335
Strain	Vibrio cholerae M66-2
Replicon	chromosome II [Browse all T6SS(s) in this replicon]
Accession	NC_012580
Location	116837..140625
Comment
Function	N/A
T6SS Type	Type i; subtype i1
Bioinformatics investigation has been performed on this T6SS.

II. T6SS components

Component	TssH	TssD	TssL	TssI	TssA	TssB	TssC	TssE	TssF
Number	1	0	1	1	2	1	1	1	1
Component	TssG	TssJ	TssK	TssM
Number	1	1	1	1

III. genome coordinates of the T6SS gene cluster
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Note
1	VCM66_A0102 (rluA-2)	112682..114361 [-], 1680	227811730	ribosomal large subunit pseudouridine synthase A
2	VCM66_A0103	115133..115417 [+], 285	227811731	hypothetical protein	PAAR
3	VCM66_A0104	115362..116405 [+], 1044	227811732	hypothetical protein
4	VCM66_A0105	116837..117343 [+], 507	227811733	hypothetical protein	TssB
5	VCM66_A0106	117384..118862 [+], 1479	227811734	hypothetical protein	TssC
6	VCM66_A0107	118865..119302 [+], 438	227811735	hypothetical protein	TssE
7	VCM66_A0108	119308..121077 [+], 1770	227811736	hypothetical protein	TssF
8	VCM66_A0109	121041..122057 [+], 1017	227811737	hypothetical protein	TssG
9	VCM66_A0110	122060..123547 [+], 1488	227811738	hypothetical protein	Fha
10	VCM66_A0111	123550..124026 [+], 477	227811739	hypothetical protein	TssJ
11	VCM66_A0112	124033..125367 [+], 1335	227811740	hypothetical protein	TssK
12	VCM66_A0113	125370..126143 [+], 774	227811741	hypothetical protein	TssL
13	VCM66_A0114 (clpB-2)	126169..128778 [+], 2610	227811742	clpB protein	TssH
14	VCM66_A0115	128781..130373 [+], 1593	227811743	sigma-54 dependent transcriptional regulator	VasH
15	VCM66_A0116	130343..131026 [+], 684	227811744	hypothetical protein	VCA0118
16	VCM66_A0117	131036..132445 [+], 1410	227811745	hypothetical protein	TssA
17	VCM66_A0118	132461..136006 [+], 3546	227811746	IcmF-related protein	TssM
18	VCM66_A0119	136054..137319 [+], 1266	227811747	hypothetical protein	TssA
19	VCM66_A0120	137370..137612 [+], 243	227811748	hypothetical protein
20	VCM66_A0121 (vgrG-3)	137572..140625 [+], 3054	227811749	vgrG protein	TssI
21	VCM66_A0122	140622..140990 [+], 369	227811750	hypothetical protein	TsiV3 (i)
22	VCM66_A0123	141138..141398 [-], 261	227811751	hypothetical protein
23	VCM66_A0124	141373..141582 [+], 210	227811752	hypothetical protein
24	VCM66_A0125 (rbsD)	141631..142101 [+], 471	227811753	D-ribose pyranase
25	VCM66_A0126 (rbsA)	142128..143630 [+], 1503	227811754	D-ribose transporter ATP binding protein
26	VCM66_A0127 (rbsC)	143627..144628 [+], 1002	227811755	ribose ABC transporter permease protein
27	VCM66_A0128 (rbsB)	144683..145567 [+], 885	227811756	D-ribose transporter subunit RbsB

 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

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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

ABG57132 , VC1416, VC1418, VCA0017, VCA0018, VCA0020, VCA0118, VCA0123, VCA0285

Effector identified
#	Locus tag (Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	VCM66_1370(hcp-1)	1467074..1467592 [+], 519	227081586	hcp protein	ABG57132
2	VCM66_1371(vgrG-1)	1467720..1471211 [+], 3492	227081587	vgrG protein	VC1416
3	VCM66_1373	1472053..1473978 [+], 1926	227081589	hypothetical protein	VC1418
4	VCM66_A0016(hcp-2)	19766..20284 [+], 519	227811648	hcp protein	VCA0017
5	VCM66_A0017(vgrG-2)	20412..22496 [+], 2085	227811649	vgrG protein	VCA0018
6	VCM66_A0019	23380..26646 [+], 3267	227811651	hypothetical protein	VCA0020
7	VCM66_A0116	130343..131026 [+], 684	227811744	hypothetical protein	VCA0118
8	VCM66_A0121(vgrG-3)	137572..140625 [+], 3054	227811749	vgrG protein	VCA0123
9	VCM66_A0284	306399..307070 [+], 672	227811908	hypothetical protein	VCA0285

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Proteins        Genes

Homology Immunity protein list

VC1419, VCA0021, VCA0124, VCA0286

Immunity protein identified
#	Locus tag(Gene)	Coordinates [+/-], size (bp)	Protein GI	Product	Homolog
1	VCM66_1374	1473975..1474718 [+], 744	227081590	hypothetical protein	VC1419
2	VCM66_A0020	26647..27375 [+], 729	227811652	hypothetical protein	VCA0021
3	VCM66_A0122	140622..140990 [+], 369	227811750	hypothetical protein	VCA0124
4	VCM66_A0285	307072..307422 [+], 351	227811909	hypothetical protein	VCA0286

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Proteins        Genes

N/A