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Overview
1.1
1.2
2.1
2.2

### Identified secondary metabolite regions using strictness 'loose'

NZ_NCTK01000001.1 (Ralstonia solanacearum K60)

Region | Type | From | To
--- | --- | --- | ---
Region 1.1 | putative_wzy_dependent_NO_OPX | 1,024,621 | 1,044,393
Region 1.2 | pel | 3,164,786 | 3,187,593

NZ_NCTK01000002.1 (Ralstonia solanacearum K60)

Region | Type | From | To
--- | --- | --- | ---
Region 2.1 | PNAG-pga | 299,948 | 315,841
Region 2.2 | putative_wzy_dependent | 1,130,733 | 1,162,640

Region | Type | From | To
--- | --- | --- | ---
Region 1.1 | putative_wzy_dependent_NO_OPX | 1,024,621 | 1,044,393
Region 1.2 | pel | 3,164,786 | 3,187,593
Region 2.1 | PNAG-pga | 299,948 | 315,841
Region 2.2 | putative_wzy_dependent | 1,130,733 | 1,162,640

Compact view
NZ_NCTK01000001.1 - Region 1 - putative_wzy_dependent_NO_OPX
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 1,024,621 - 1,044,393 nt. (total: 19,773 nt) Show pHMM detection rules used
putative_wzy_dependent_NO_OPX: ((minimum(1, [O-ag_pol_Wzy, WzyE, Wzy_C, l_1031_lactobacillus, l_amsC_amylovoran, l_exoQ_succinoglycan, l_gumE_acetan, l_gumE_xanthan, l_pslJ_psl, l_spnG_sphingans, l_wcaD_colanic, l_wzy_emulsan, l_wzy_zooglan]) or minimum(1, [Polysacc_synt, Polysacc_synt_2, Polysacc_synt_3, Polysacc_synt_C, l_1034_lactobacillus, l_aceE_acetan, l_amsL_amylovoran, l_epsK_pnag, l_exoT_succinoglycan, l_gumJ_xanthan, l_pslK_psl, l_spnS_sphingans, l_wzxC_zooglan, l_wzx_colanic, l_wzx_emulsan])) and minimum(1, [Wzz, l_aceD_acetan, l_amsA_amylovoran, l_epsB_lactobacillus, l_exoP_succinoglycan, l_gumC_xanthan, l_pslE_psl, l_spnC_sphingans, l_spnE_sphingans, l_wzc_colanic, l_wzc_emulsan, l_wzc_zooglan]) and (minimum(2, [l_epsL_pnag, l_gumM_xanthan, l_zooGT1_zooglan, l_zooGT5_zooglan, l_zooGT7_zooglan]) or minimum(2, [l_1030_lactobacillus, l_epsL_pnag, l_gumM_xanthan, l_zooGT1_zooglan, l_zooGT5_zooglan]) or minimum(2, [l_1028_lactobacillus, l_epsL_pnag, l_gumM_xanthan, l_zooGT1_zooglan, l_zooGT7_zooglan]) or minimum(2, [l_1028_lactobacillus, l_1030_lactobacillus, l_epsL_pnag, l_gumM_xanthan, l_zooGT1_zooglan])))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport related genes
regulatory genes
degradation genes
glycosyltransferase genes
modification genes
polymerisation genes
other genes
precursor genes
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
No hits above weak threshold.
Weak hits (2):
ArgR
Description: Regulator of arginine biosynthesis genes
Score: 17.44 out of 20.01
Confidence: weak
ZuR
Description: Zinc-responsive repressor
Score: 19.07 out of 28.19
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ArgR | Regulator of arginine biosynthesis genes
ZuR | Zinc-responsive repressor

NZ_NCTK01000001.1 - Region 2 - pel
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 3,164,786 - 3,187,593 nt. (total: 22,808 nt) Show pHMM detection rules used
pel: (pelA and pelB and pelC and pelD and pelE and pelF and pelG)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport related genes
regulatory genes
degradation genes
glycosyltransferase genes
modification genes
polymerisation genes
other genes
precursor genes
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
No hits above weak threshold.
Weak hits (3):
NuR
Description: Nickel-responsive regulator
Score: 20.72 out of 30.98
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor
Score: 20.43 out of 27.04
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor
Score: 19.59 out of 27.04
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
NuR | Nickel-responsive regulator
DasR | N-acetylglucosamine dependent repressor

NZ_NCTK01000002.1 - Region 1 - PNAG-pga
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 299,948 - 315,841 nt. (total: 15,894 nt) Show pHMM detection rules used
PNAG-pga: (pgaA and pgaB and pgaC)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport related genes
regulatory genes
degradation genes
glycosyltransferase genes
modification genes
polymerisation genes
other genes
precursor genes
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
CatR
Description: H2O2-responsive repressor
Score: 19.79 out of 25.31
Confidence: medium
Additional weak hits (3):
ZuR
Description: Zinc-responsive repressor
Score: 18.45 out of 28.19
Confidence: weak
NrtR
Description: NAD synthesis repressor
Score: 21.69 out of 35.63
Confidence: weak
ZuR
Description: Zinc-responsive repressor
Score: 18.93 out of 28.19
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ZuR | Zinc-responsive repressor
CatR | H2O2-responsive repressor
NrtR | NAD synthesis repressor

NZ_NCTK01000002.1 - Region 2 - putative_wzy_dependent
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 1,130,733 - 1,162,640 nt. (total: 31,908 nt) Show pHMM detection rules used
putative_wzy_dependent: ((minimum(1, [O-ag_pol_Wzy, WzyE, Wzy_C, l_1031_lactobacillus, l_amsC_amylovoran, l_exoQ_succinoglycan, l_gumE_acetan, l_gumE_xanthan, l_pslJ_psl, l_spnG_sphingans, l_wcaD_colanic, l_wzy_emulsan, l_wzy_zooglan]) or minimum(1, [Polysacc_synt, Polysacc_synt_2, Polysacc_synt_3, Polysacc_synt_C, l_1034_lactobacillus, l_aceE_acetan, l_amsL_amylovoran, l_epsK_pnag, l_exoT_succinoglycan, l_gumJ_xanthan, l_pslK_psl, l_spnS_sphingans, l_wzxC_zooglan, l_wzx_colanic, l_wzx_emulsan])) and minimum(1, [Poly_export, Wza_C, l_aceH_acetan, l_amsH_amylovoran, l_gumB_xanthan, l_pslD_psl, l_spnD_sphingans, l_wza_colanic, l_wza_emulsan, l_wza_zooglan]) and minimum(1, [Wzz, l_aceD_acetan, l_amsA_amylovoran, l_epsB_lactobacillus, l_exoP_succinoglycan, l_gumC_xanthan, l_pslE_psl, l_spnC_sphingans, l_spnE_sphingans, l_wzc_colanic, l_wzc_emulsan, l_wzc_zooglan]) and (minimum(2, [l_epsL_pnag, l_gumM_xanthan, l_zooGT1_zooglan, l_zooGT5_zooglan, l_zooGT7_zooglan]) or minimum(2, [l_1030_lactobacillus, l_epsL_pnag, l_gumM_xanthan, l_zooGT1_zooglan, l_zooGT5_zooglan]) or minimum(2, [l_1028_lactobacillus, l_epsL_pnag, l_gumM_xanthan, l_zooGT1_zooglan, l_zooGT7_zooglan]) or minimum(2, [l_1028_lactobacillus, l_1030_lactobacillus, l_epsL_pnag, l_gumM_xanthan, l_zooGT1_zooglan])))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport related genes
regulatory genes
degradation genes
glycosyltransferase genes
modification genes
polymerisation genes
other genes
precursor genes
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ZuR
Description: Zinc-responsive repressor
Score: 23.24 out of 28.19
Confidence: medium
Additional weak hits (5):
BldD
Description: Development and antibiotic global regulator
Score: 19.11 out of 23.43
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Score: 22.10 out of 30.11
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Score: 22.10 out of 30.11
Confidence: weak
ZuR
Description: Zinc-responsive repressor
Score: 18.85 out of 28.19
Confidence: weak
NrtR
Description: NAD synthesis repressor
Score: 21.22 out of 35.63
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ZuR | Zinc-responsive repressor
BldD | Development and antibiotic global regulator
CelR | Cellobiose uptake repressor
NrtR | NAD synthesis repressor