GCF_001682915.1_ASM168291v1_genomic - 21 region(s)

Identified primary metabolite regions

NZ_LSME01000001 (original name was: NZ_LSME01000001.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 1.1	Fumarate2succinate	SCFA	124,572	147,070	Fumarate2succinate suc dh E. coli	SUC	100%
Region 1.2	Molybdopterin_dependent_oxidoreductase,Pyruvate2acetate-formate	SCFA	339,702	374,775	DMSO-TMAO reducatse E. coli	DMSAO-TMAO	100%

NZ_LSME01000010 (original name was: NZ_LSME01000010.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 2.1	Rnf_complex	E-MGC	24,908	50,672	Rnf complex C. sporogenes	RNF	66%
Region 2.2	Nitrate_reductase	E-MGC	144,646	158,869	Nitrate reductase E. coli	NIR	80%

NZ_LSME01000011 (original name was: NZ_LSME01000011.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 3.1	Others_HGD_unassigned	Putative	121,182	143,103

NZ_LSME01000014 (original name was: NZ_LSME01000014.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 6.1	Formate_dehydrogenase	E-MGC	78,112	102,709	Formate dehydrogenase E. coli	FORM	100%

NZ_LSME01000017 (original name was: NZ_LSME01000017.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 9.1	fatty_acids-unassigned	Putative	1	17,862
Region 9.2	TPP_AA_metabolism	Putative	83,821	103,983

NZ_LSME01000002 (original name was: NZ_LSME01000002.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 12.1	Respiratory_glycerol	E-MGC	18,198	42,268	GlycerolP to glyceroneP E. coli	GLYP	100%
Region 12.2	NADH_dehydrogenase_I	E-MGC	73,882	108,837	NADH dehydrogenase I E. coli	NADHD	100%
Region 12.3	fatty_acids-unassigned	Putative	134,874	167,902
Region 12.4	Fumarate2succinate	SCFA	352,494	384,156

NZ_LSME01000022 (original name was: NZ_LSME01000022.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 15.1	Formate_dehydrogenase	E-MGC	1	23,245	Formate dehydrogenase E. coli	FORM	100%

NZ_LSME01000027 (original name was: NZ_LSME01000027.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 20.1	hydroxybenzoate2phenol	Aromatic	17,669	39,689	hydroxybenzoate2phenol K. pneumoniae	PHE	100%

NZ_LSME01000003 (original name was: NZ_LSME01000003.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 23.1	Glycine_cleavage	Other	1	27,734	Glycine cleavage C. sticklandii	GLY	80%
Region 23.2	Arginine2putrescine	Aliphatic_amine	31,759	55,673	Arginine2putrescine E. coli	PUTR	75%

NZ_LSME01000031 (original name was: NZ_LSME01000031.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 25.1	Molybdopterin_dependent_oxidoreductase	E-MGC	1	20,515	DMSO-TMAO reducatse E. coli	DMSAO-TMAO	100%

NZ_LSME01000035 (original name was: NZ_LSME01000035.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 29.1	PFOR_II_pathway	SCFA	1	20,099	PFOR II pathway B. thetaiotaomicron	PFORII	100%

NZ_LSME01000004 (original name was: NZ_LSME01000004.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 34.1	TMA	SCFA-other	66,728	111,282	Trimethylamine synthesis C. sporogenes	TMA	66%

NZ_LSME01000007 (original name was: NZ_LSME01000007.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 67.1	Fumarate2succinate	SCFA	76,745	99,262	Fumarate2succinate fum red E. coli	SUC	100%

NZ_LSME01000008 (original name was: NZ_LSME01000008.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 78.1	Nitrate_reductase	E-MGC	1	25,384	Nitrate reductase E. coli	NIR	80%

No primary metabolite regions were found in these records:: NZ_LSME01000012 (original name was: NZ_LSME01000012.1); NZ_LSME01000013 (original name was: NZ_LSME01000013.1); NZ_LSME01000015 (original name was: NZ_LSME01000015.1); NZ_LSME01000016 (original name was: NZ_LSME01000016.1); NZ_LSME01000018 (original name was: NZ_LSME01000018.1); NZ_LSME01000019 (original name was: NZ_LSME01000019.1); NZ_LSME01000020 (original name was: NZ_LSME01000020.1); NZ_LSME01000021 (original name was: NZ_LSME01000021.1); NZ_LSME01000023 (original name was: NZ_LSME01000023.1); NZ_LSME01000024 (original name was: NZ_LSME01000024.1); NZ_LSME01000025 (original name was: NZ_LSME01000025.1); NZ_LSME01000026 (original name was: NZ_LSME01000026.1); NZ_LSME01000028 (original name was: NZ_LSME01000028.1); NZ_LSME01000029 (original name was: NZ_LSME01000029.1); NZ_LSME01000030 (original name was: NZ_LSME01000030.1); NZ_LSME01000032 (original name was: NZ_LSME01000032.1); NZ_LSME01000033 (original name was: NZ_LSME01000033.1); NZ_LSME01000034 (original name was: NZ_LSME01000034.1); NZ_LSME01000036 (original name was: NZ_LSME01000036.1); NZ_LSME01000037 (original name was: NZ_LSME01000037.1); NZ_LSME01000038 (original name was: NZ_LSME01000038.1); NZ_LSME01000039 (original name was: NZ_LSME01000039.1); NZ_LSME01000040 (original name was: NZ_LSME01000040.1); NZ_LSME01000041 (original name was: NZ_LSME01000041.1); NZ_LSME01000042 (original name was: NZ_LSME01000042.1); NZ_LSME01000043 (original name was: NZ_LSME01000043.1); NZ_LSME01000044 (original name was: NZ_LSME01000044.1); NZ_LSME01000045 (original name was: NZ_LSME01000045.1); NZ_LSME01000046 (original name was: NZ_LSME01000046.1); NZ_LSME01000047 (original name was: NZ_LSME01000047.1); NZ_LSME01000048 (original name was: NZ_LSME01000048.1); NZ_LSME01000049 (original name was: NZ_LSME01000049.1); NZ_LSME01000005 (original name was: NZ_LSME01000005.1); NZ_LSME01000050 (original name was: NZ_LSME01000050.1); NZ_LSME01000051 (original name was: NZ_LSME01000051.1); NZ_LSME01000052 (original name was: NZ_LSME01000052.1); NZ_LSME01000053 (original name was: NZ_LSME01000053.1); NZ_LSME01000054 (original name was: NZ_LSME01000054.1); NZ_LSME01000055 (original name was: NZ_LSME01000055.1); NZ_LSME01000056 (original name was: NZ_LSME01000056.1); NZ_LSME01000057 (original name was: NZ_LSME01000057.1); NZ_LSME01000058 (original name was: NZ_LSME01000058.1); NZ_LSME01000059 (original name was: NZ_LSME01000059.1); NZ_LSME01000006 (original name was: NZ_LSME01000006.1); NZ_LSME01000060 (original name was: NZ_LSME01000060.1); NZ_LSME01000061 (original name was: NZ_LSME01000061.1); NZ_LSME01000062 (original name was: NZ_LSME01000062.1); NZ_LSME01000063 (original name was: NZ_LSME01000063.1); NZ_LSME01000064 (original name was: NZ_LSME01000064.1); NZ_LSME01000065 (original name was: NZ_LSME01000065.1); NZ_LSME01000066 (original name was: NZ_LSME01000066.1); NZ_LSME01000067 (original name was: NZ_LSME01000067.1); NZ_LSME01000068 (original name was: NZ_LSME01000068.1); NZ_LSME01000069 (original name was: NZ_LSME01000069.1); NZ_LSME01000070 (original name was: NZ_LSME01000070.1); NZ_LSME01000071 (original name was: NZ_LSME01000071.1); NZ_LSME01000072 (original name was: NZ_LSME01000072.1); NZ_LSME01000073 (original name was: NZ_LSME01000073.1); NZ_LSME01000074 (original name was: NZ_LSME01000074.1); NZ_LSME01000075 (original name was: NZ_LSME01000075.1); NZ_LSME01000076 (original name was: NZ_LSME01000076.1); NZ_LSME01000077 (original name was: NZ_LSME01000077.1); NZ_LSME01000078 (original name was: NZ_LSME01000078.1); NZ_LSME01000079 (original name was: NZ_LSME01000079.1); NZ_LSME01000009 (original name was: NZ_LSME01000009.1)

Compact view

c00001_NZ_LSME.. - Region 1 - Fumarate2succinate

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Location: 124,572 - 147,070 nt. (total: 22,499 nt) Show pHMM detection rules used

Fumarate2succinate: (Succ_DH_flav_C and FAD_binding_2 and (Fer2_3 or Fer4_7 or SucD_FumR))

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c00001_NZ_LSME.. - Region 2 - Molybdopterin_dependent_oxidoreductase,Pyruvate2acetate-formate

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Location: 339,702 - 374,775 nt. (total: 35,074 nt) Show pHMM detection rules used

Molybdopterin_dependent_oxidoreductase: ((DmsC and Molybdopterin and minimum(2, [Fer4_11, Fer4_4, Molybdop_Fe4S4, Molydop_binding])) or (NrfD and Molybdopterin and minimum(2, [Fer4_11, Molybdop_Fe4S4, Molydop_binding]) and not (Nitr_red_bet_C or Nitrate_red_del)))
Pyruvate2acetate-formate: ((PFL_acetate1 or PFL_acetate2) and Radical_SAM)

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c00002_NZ_LSME.. - Region 1 - Rnf_complex

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Location: 24,908 - 50,672 nt. (total: 25,765 nt) Show pHMM detection rules used

Rnf_complex: (Complex1_51K and minimum(5, [FMN_bind, FeS, Fer4, Fer4_9, NQR2_RnfD_RnfE, Rnf-Nqr, RnfC_N, SLBB]))

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c00002_NZ_LSME.. - Region 2 - Nitrate_reductase

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Location: 144,646 - 158,869 nt. (total: 14,224 nt) Show pHMM detection rules used

Region on contig edge.

Nitrate_reductase: (Nitr_red_bet_C and Nitrate_red_del and Nitrate_red_gam and Molybdopterin and minimum(2, [Fer4_11, Molybdopterin, Molydop_binding, Nitr_red_alph_N]))

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c00003_NZ_LSME.. - Region 1 - Others_HGD_unassigned

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Location: 121,182 - 143,103 nt. (total: 21,922 nt) Show pHMM detection rules used

Others_HGD_unassigned: (minimum(1, [HAAA1, HG2B1, HG2B2, HGD-D, HleuD1, HleuD2, HleuS1, HleuS2, Lactoyl-CoA1, Lactoyl-CoA2]) and minimum(1, [ACP_syn_III, ACP_syn_III_C, AcetylCoA_hyd_C, AcetylCoA_hydro, Acyl-CoA_dh_1, Acyl-CoA_dh_2, AdoHcyase_NAD, AlaDh_PNT_C, BcrAD_BadFG, Biotin_lipoyl, Carboxyl_trans, CoA_trans, CoA_trans_230_acto, CoA_trans_6_Glutaconate, CoA_transf_3, ECH_1, ECH_2, ETF, ETF_alpha, FGGY_C, HCDH, HCDH_N, Hacid_dh, Hacid_dh_C, Mal_decarbox_Al, Peptidase_M22, Peptidase_M23, Thiolase_C, Thiolase_N, ketoacyl-synt]) and not (minimum(2, [AcetylCoA_hyd_C, BcrAD_BadFG, CoA_trans, CoA_trans_230_acto, Mal_decarbox_Al]) and Lactoyl-CoA2 and Lactoyl-CoA1) and not (minimum(4, [ACP_syn_III, ACP_syn_III_C, Acyl-CoA_dh_1, Acyl-CoA_dh_2, AlaDh_PNT_C, BcrAD_BadFG, ECH_1, ECH_2, ETF, ETF_alpha, HCDH, HCDH_N, Hacid_dh, Hacid_dh_C, IlvN, NAD_Gly3P_dh_N, Thiolase_C, Thiolase_N, ketoacyl-synt]) and HAAA1 and not HleuS1))

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c00006_NZ_LSME.. - Region 1 - Formate_dehydrogenase

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Location: 78,112 - 102,709 nt. (total: 24,598 nt) Show pHMM detection rules used

Formate_dehydrogenase: (Molybdopterin and Form-deh_trans and not (Nitr_red_bet_C or Nitr_red_alph_N) and minimum(3, [Fer4_11, Fer4_4, Molybdop_Fe4S4, Molydop_binding, Ni_hydr_CYTB]))

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c00009_NZ_LSME.. - Region 1 - fatty_acids-unassigned

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Location: 1 - 17,862 nt. (total: 17,862 nt) Show pHMM detection rules used

Region on contig edge.

fatty_acids-unassigned: (not (EC1_2-faecali or baiH or baiCD or ECH1_Enoyl_CoA_DH1 or ECH1_Enoyl_CoA_DH2 or ECH1_Enoyl_CoA_DH3 or ECH1_Enoyl_CoA_DH4 or POR or POR_N or PFOR_II) and minimum(4, [AcetylCoA_hyd_C, Acyl-CoA_dh_1, Acyl-CoA_dh_2, EC1_2-faecali, ECH1_8_CARC, ECH_1, ECH_2, HBT, HCDH, HCDH_N, Thiolase_C, Thiolase_N, ketoacyl-synt]))

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c00009_NZ_LSME.. - Region 2 - TPP_AA_metabolism

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Location: 83,821 - 103,983 nt. (total: 20,163 nt) Show pHMM detection rules used

Region on contig edge.

TPP_AA_metabolism: (TPP_enzyme_C and not (PFL-like or PFL_6_pcresol or PFL_9_tma or Gly_radical or Gly_430_pcre or Gly_8-9_TMA or PFL_acetate1 or PFL_acetate2 or Gly_radical_scatole or PFL_proline or PFL_toluene) and minimum(2, [ALS_ss_C, AlaDh_PNT_C, Arginase, BKACE, BcrAD_BadFG, Beta_elim_lyase, CPSase_L_D2, Cys_Met_Meta_PP, ELFV_dehydrog, GRDB, Glu_syn_central, Glu_synthase, Gly_reductase, HAAA1, HG2B1, HG2B2, HGD-D, HleuD1, HleuD2, HleuS1, HleuS2, Homoserine_dh, ILVD_EDD, IlvC, Lactoyl-CoA1, Lactoyl-CoA2, Lyase_aromatic, MAAL_C, OKR_DC_1_5_lysine, OKR_DC_1_5_ornithine, OKR_DC_1_7_arginine, OKR_DC_1_C, OTCace, PALP, Proline_reductase, Sacchrp_dh_C, TPL, Thr_dehydrat_C, TnaA, Urocanase]) and not (POR or POR_N or PFOR_II))

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c00012_NZ_LSME.. - Region 1 - Respiratory_glycerol

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Location: 18,198 - 42,268 nt. (total: 24,071 nt) Show pHMM detection rules used

Respiratory_glycerol: (DAO and Fer2_BFD and FAD_binding_2 and Fer4_8)

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c00012_NZ_LSME.. - Region 2 - NADH_dehydrogenase_I

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Location: 73,882 - 108,837 nt. (total: 34,956 nt) Show pHMM detection rules used

NADH_dehydrogenase_I: (Oxidored_q4 and Oxidored_q6 and Complex1_30kDa and Complex1_49kDa and NADHdh and Oxidored_q3 and Oxidored_q2 and minimum(4, [Fe-2S_thioredx, Fer2_4, Fer4_7, Molybdop_Fe4S4, Molydop_binding, NADH-G_4Fe-4S_3, NADH_4Fe-4S, Proton_antipo_M, Proton_antipo_N, SLBB]))

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c00012_NZ_LSME.. - Region 3 - fatty_acids-unassigned

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Location: 134,874 - 167,902 nt. (total: 33,029 nt) Show pHMM detection rules used

fatty_acids-unassigned: (not (EC1_2-faecali or baiH or baiCD or ECH1_Enoyl_CoA_DH1 or ECH1_Enoyl_CoA_DH2 or ECH1_Enoyl_CoA_DH3 or ECH1_Enoyl_CoA_DH4 or POR or POR_N or PFOR_II) and minimum(4, [AcetylCoA_hyd_C, Acyl-CoA_dh_1, Acyl-CoA_dh_2, EC1_2-faecali, ECH1_8_CARC, ECH_1, ECH_2, HBT, HCDH, HCDH_N, Thiolase_C, Thiolase_N, ketoacyl-synt]))

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c00012_NZ_LSME.. - Region 4 - Fumarate2succinate

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Location: 352,494 - 384,156 nt. (total: 31,663 nt) Show pHMM detection rules used

Fumarate2succinate: (Succ_DH_flav_C and FAD_binding_2 and (Fer2_3 or Fer4_7 or SucD_FumR))

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c00015_NZ_LSME.. - Region 1 - Formate_dehydrogenase

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Location: 1 - 23,245 nt. (total: 23,245 nt) Show pHMM detection rules used

Region on contig edge.

Formate_dehydrogenase: (Molybdopterin and Form-deh_trans and not (Nitr_red_bet_C or Nitr_red_alph_N) and minimum(3, [Fer4_11, Fer4_4, Molybdop_Fe4S4, Molydop_binding, Ni_hydr_CYTB]))

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c00020_NZ_LSME.. - Region 1 - hydroxybenzoate2phenol

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Location: 17,669 - 39,689 nt. (total: 22,021 nt) Show pHMM detection rules used

hydroxybenzoate2phenol: (Flavoprotein and Phea_decarb and not ubi_syn)

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c00023_NZ_LSME.. - Region 1 - Glycine_cleavage

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Location: 1 - 27,734 nt. (total: 27,734 nt) Show pHMM detection rules used

Region on contig edge.

Glycine_cleavage: (minimum(2, [Aminotran_5, GCV_H, GCV_T, GDC-P, SoxG]) and GCV_H and GCV_T_C)

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c00023_NZ_LSME.. - Region 2 - Arginine2putrescine

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Location: 31,759 - 55,673 nt. (total: 23,915 nt) Show pHMM detection rules used

Arginine2putrescine: (minimum(3, [AdoMet_dc, Amidinotransf, Arginase, OKR_DC_1, OKR_DC_1_7_arginine, OTCace]) or ((OKR_DC_1_5_ornithine or OKR_DC_1 or Orn_Arg_deC_N) and minimum(1, [Arginase, OTCace, OTCace_N, PAD_porph])))

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c00025_NZ_LSME.. - Region 1 - Molybdopterin_dependent_oxidoreductase

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Location: 1 - 20,515 nt. (total: 20,515 nt) Show pHMM detection rules used

Region on contig edge.

Molybdopterin_dependent_oxidoreductase: ((DmsC and Molybdopterin and minimum(2, [Fer4_11, Fer4_4, Molybdop_Fe4S4, Molydop_binding])) or (NrfD and Molybdopterin and minimum(2, [Fer4_11, Molybdop_Fe4S4, Molydop_binding]) and not (Nitr_red_bet_C or Nitrate_red_del)))

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c00029_NZ_LSME.. - Region 1 - PFOR_II_pathway

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Location: 1 - 20,099 nt. (total: 20,099 nt) Show pHMM detection rules used

Region on contig edge.

PFOR_II_pathway: cds(POR and POR_N and PFOR_II and EKR and Fer4_16 and TPP_enzyme_C)

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c00034_NZ_LSME.. - Region 1 - TMA

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Location: 66,728 - 111,282 nt. (total: 44,555 nt) Show pHMM detection rules used

TMA: (minimum(2, [Aldedh, BMC, PduV-EutP, Radical_SAM]) and PFL_9_tma and Gly_8-9_TMA and not NRDD)

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c00067_NZ_LSME.. - Region 1 - Fumarate2succinate

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Location: 76,745 - 99,262 nt. (total: 22,518 nt) Show pHMM detection rules used

Fumarate2succinate: (Succ_DH_flav_C and FAD_binding_2 and (Fer2_3 or Fer4_7 or SucD_FumR))

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c00078_NZ_LSME.. - Region 1 - Nitrate_reductase

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Location: 1 - 25,384 nt. (total: 25,384 nt) Show pHMM detection rules used

Region on contig edge.

Nitrate_reductase: (Nitr_red_bet_C and Nitrate_red_del and Nitrate_red_gam and Molybdopterin and minimum(2, [Fer4_11, Molybdopterin, Molydop_binding, Nitr_red_alph_N]))

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core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

resistance genes

encapsulation genes

electron transport genes

other genes

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