GCF_000732635.1_CloSul1.0_genomic - 14 region(s)

Identified primary metabolite regions

NZ_JPMD01000001 (original name was: NZ_JPMD01000001.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 1.1	PFOR_II_pathway	SCFA	188,572	212,081	PFOR II pathway B. thetaiotaomicron	PFORII	100%

NZ_JPMD01000004 (original name was: NZ_JPMD01000004.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 4.1	Glycine_cleavage	Other	29,909	54,219	Glycine cleavage C. sticklandii	GLY	80%

NZ_JPMD01000006 (original name was: NZ_JPMD01000006.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 6.1	acetate2butyrate,Lysine_degradation	SCFA	33,359	62,459	Lysine degradation C. sticklandii	LYS	61%

NZ_JPMD01000007 (original name was: NZ_JPMD01000007.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 7.1	EUT_pathway	SCFA-other	1	26,774	Ethanolamine degradation S. typhimurium	EUT	52%

NZ_JPMD01000015 (original name was: NZ_JPMD01000015.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 15.1	Hydroxy-L-proline2proline	Other	28,372	50,744	Hydroxy-L-proline2proline C. difficile	PRO	100%

NZ_JPMD01000020 (original name was: NZ_JPMD01000020.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 20.1	Glycine_reductase	SCFA	4,364	30,552	Glycine reductase C. sticklandii	GLY	83%

NZ_JPMD01000024 (original name was: NZ_JPMD01000024.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 24.1	Arginine2putrescine,Arginine2_Hcarbonate	Other	7,159	32,638	Arginine to hydrogen carbonate P. aeruginosa	ARG	100%

NZ_JPMD01000026 (original name was: NZ_JPMD01000026.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 26.1	Others_HGD_unassigned	Putative	1	14,442

NZ_JPMD01000027 (original name was: NZ_JPMD01000027.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 27.1	OD_fatty_acids,porA	SCFA	34,694	61,253	porA C. sporogenes	POR	80%

NZ_JPMD01000028 (original name was: NZ_JPMD01000028.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 28.1	Rnf_complex	E-MGC	105,424	130,251	Rnf complex C. sporogenes	RNF	100%

NZ_JPMD01000035 (original name was: NZ_JPMD01000035.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 35.1	OD_AA_metabolism	Putative	7,898	35,216

NZ_JPMD01000038 (original name was: NZ_JPMD01000038.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 38.1	TMA	SCFA-other	107,609	153,936	Trimethylamine synthesis C. sporogenes	TMA	100%

NZ_JPMD01000039 (original name was: NZ_JPMD01000039.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 39.1	Putrescine2spermidine	Aliphatic_amine	14,850	36,546

NZ_JPMD01000055 (original name was: NZ_JPMD01000055.1)

Region	Type	Class	From	To	Most similar known cluster		Similarity
Region 55.1	Pyruvate2acetate-formate	SCFA	1	15,831	Pyruvate to acetate and formate C. acetobutylicum	PFL_acetate	100%

No primary metabolite regions were found in these records:: NZ_JPMD01000002 (original name was: NZ_JPMD01000002.1); NZ_JPMD01000003 (original name was: NZ_JPMD01000003.1); NZ_JPMD01000005 (original name was: NZ_JPMD01000005.1); NZ_JPMD01000008 (original name was: NZ_JPMD01000008.1); NZ_JPMD01000009 (original name was: NZ_JPMD01000009.1); NZ_JPMD01000010 (original name was: NZ_JPMD01000010.1); NZ_JPMD01000011 (original name was: NZ_JPMD01000011.1); NZ_JPMD01000012 (original name was: NZ_JPMD01000012.1); NZ_JPMD01000013 (original name was: NZ_JPMD01000013.1); NZ_JPMD01000014 (original name was: NZ_JPMD01000014.1); NZ_JPMD01000016 (original name was: NZ_JPMD01000016.1); NZ_JPMD01000017 (original name was: NZ_JPMD01000017.1); NZ_JPMD01000018 (original name was: NZ_JPMD01000018.1); NZ_JPMD01000019 (original name was: NZ_JPMD01000019.1); NZ_JPMD01000021 (original name was: NZ_JPMD01000021.1); NZ_JPMD01000022 (original name was: NZ_JPMD01000022.1); NZ_JPMD01000023 (original name was: NZ_JPMD01000023.1); NZ_JPMD01000025 (original name was: NZ_JPMD01000025.1); NZ_JPMD01000029 (original name was: NZ_JPMD01000029.1); NZ_JPMD01000030 (original name was: NZ_JPMD01000030.1); NZ_JPMD01000031 (original name was: NZ_JPMD01000031.1); NZ_JPMD01000032 (original name was: NZ_JPMD01000032.1); NZ_JPMD01000033 (original name was: NZ_JPMD01000033.1); NZ_JPMD01000034 (original name was: NZ_JPMD01000034.1); NZ_JPMD01000036 (original name was: NZ_JPMD01000036.1); NZ_JPMD01000037 (original name was: NZ_JPMD01000037.1); NZ_JPMD01000040 (original name was: NZ_JPMD01000040.1); NZ_JPMD01000041 (original name was: NZ_JPMD01000041.1); NZ_JPMD01000042 (original name was: NZ_JPMD01000042.1); NZ_JPMD01000043 (original name was: NZ_JPMD01000043.1); NZ_JPMD01000044 (original name was: NZ_JPMD01000044.1); NZ_JPMD01000045 (original name was: NZ_JPMD01000045.1); NZ_JPMD01000046 (original name was: NZ_JPMD01000046.1); NZ_JPMD01000047 (original name was: NZ_JPMD01000047.1); NZ_JPMD01000048 (original name was: NZ_JPMD01000048.1); NZ_JPMD01000049 (original name was: NZ_JPMD01000049.1); NZ_JPMD01000050 (original name was: NZ_JPMD01000050.1); NZ_JPMD01000051 (original name was: NZ_JPMD01000051.1); NZ_JPMD01000052 (original name was: NZ_JPMD01000052.1); NZ_JPMD01000053 (original name was: NZ_JPMD01000053.1); NZ_JPMD01000054 (original name was: NZ_JPMD01000054.1); NZ_JPMD01000056 (original name was: NZ_JPMD01000056.1); NZ_JPMD01000057 (original name was: NZ_JPMD01000057.1); NZ_JPMD01000058 (original name was: NZ_JPMD01000058.1); NZ_JPMD01000059 (original name was: NZ_JPMD01000059.1); NZ_JPMD01000060 (original name was: NZ_JPMD01000060.1); NZ_JPMD01000061 (original name was: NZ_JPMD01000061.1); NZ_JPMD01000062 (original name was: NZ_JPMD01000062.1); NZ_JPMD01000063 (original name was: NZ_JPMD01000063.1); NZ_JPMD01000064 (original name was: NZ_JPMD01000064.1); NZ_JPMD01000065 (original name was: NZ_JPMD01000065.1); NZ_JPMD01000066 (original name was: NZ_JPMD01000066.1); NZ_JPMD01000067 (original name was: NZ_JPMD01000067.1); NZ_JPMD01000068 (original name was: NZ_JPMD01000068.1); NZ_JPMD01000069 (original name was: NZ_JPMD01000069.1); NZ_JPMD01000070 (original name was: NZ_JPMD01000070.1); NZ_JPMD01000071 (original name was: NZ_JPMD01000071.1); NZ_JPMD01000072 (original name was: NZ_JPMD01000072.1); NZ_JPMD01000073 (original name was: NZ_JPMD01000073.1); NZ_JPMD01000078 (original name was: NZ_JPMD01000078.1); NZ_JPMD01000079 (original name was: NZ_JPMD01000079.1); NZ_JPMD01000081 (original name was: NZ_JPMD01000081.1); NZ_JPMD01000082 (original name was: NZ_JPMD01000082.1); NZ_JPMD01000083 (original name was: NZ_JPMD01000083.1); NZ_JPMD01000089 (original name was: NZ_JPMD01000089.1)

Compact view

c00001_NZ_JPMD.. - Region 1 - PFOR_II_pathway

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Location: 188,572 - 212,081 nt. (total: 23,510 nt) Show pHMM detection rules used

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

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c00004_NZ_JPMD.. - Region 1 - Glycine_cleavage

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Location: 29,909 - 54,219 nt. (total: 24,311 nt) Show pHMM detection rules used

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

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c00006_NZ_JPMD.. - Region 1 - Lysine_degradation,acetate2butyrate

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Location: 33,359 - 62,459 nt. (total: 29,101 nt) Show pHMM detection rules used

Region on contig edge.

acetate2butyrate: (not (POR or POR_N or PFOR_II) and minimum(4, [Acyl-CoA_dh_1, Acyl-CoA_dh_2, ECH_2, ETF, ETF_alpha, HCDH_N, Thiolase_N, ketoacyl-synt]) and HCDH and minimum(1, [EC1_2-faecali, ECH1_Enoyl_CoA_DH1, ECH1_Enoyl_CoA_DH2, ECH1_Enoyl_CoA_DH3, ECH1_Enoyl_CoA_DH4, Thiolase_C]))
Lysine_degradation: (minimum(1, [AcetylCoA_hydro, CoA_trans, HBT, Lys-AminoMut_A]) and BKACE and LAM_C and Radical_SAM and B12-binding and OAM_dimer)

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c00007_NZ_JPMD.. - Region 1 - EUT_pathway

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Location: 1 - 26,774 nt. (total: 26,774 nt) Show pHMM detection rules used

Region on contig edge.

EUT_pathway: (minimum(3, [Aldedh, BMC, Cob_adeno_trans, EutA, EutH, EutK_C, EutN_CcmL, EutQ, Fe-ADH, Fe-ADH_2, Malic_M, MreB_Mbl, PTA_PTB, PduV-EutP, malic]) and EutB and EutC)

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c00015_NZ_JPMD.. - Region 1 - Hydroxy-L-proline2proline

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Location: 28,372 - 50,744 nt. (total: 22,373 nt) Show pHMM detection rules used

Hydroxy-L-proline2proline: ((PFL_proline or cds(PFL-like and Gly_radical)) and Radical_SAM and P5CR_dimer and F420_oxidored)

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c00020_NZ_JPMD.. - Region 1 - Glycine_reductase

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Location: 4,364 - 30,552 nt. (total: 26,189 nt) Show pHMM detection rules used

Glycine_reductase: (minimum(3, [ACP_syn_III, ACP_syn_III_C, FA_synthesis, GRDA, GRDB]) and Glycine_reductase and not Pro_racemase)

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c00024_NZ_JPMD.. - Region 1 - Arginine2_Hcarbonate,Arginine2putrescine

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Location: 7,159 - 32,638 nt. (total: 25,480 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])))
Arginine2_Hcarbonate: (Amidinotransf and OTCace and OTCace_N and AA_kinase)

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c00026_NZ_JPMD.. - Region 1 - Others_HGD_unassigned

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Location: 1 - 14,442 nt. (total: 14,442 nt) Show pHMM detection rules used

Region on contig edge.

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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c00027_NZ_JPMD.. - Region 1 - OD_fatty_acids,porA

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Location: 34,694 - 61,253 nt. (total: 26,560 nt) Show pHMM detection rules used

OD_fatty_acids: (minimum(1, [PFOR_II, POR, POR_N]) and (minimum(2, [ACD1_car, ACP_syn_III_C, AcetylCoA_hyd_C, AcetylCoA_hydro, Acyl-CoA_dh_1, Acyl-CoA_dh_2, Butyrate_kinase, CT_Propionyl_CoA1, CT_Propionyl_CoA2, CT_Propionyl_CoA3, Carboxyl_trans, CoA_trans, CoA_trans_230_acto, CoA_trans_2_CAF, CoA_trans_6_Glutaconate, E1_dh, ECH_1, ECH_2, HBT, HBT_2, HCDH, HpaB, Ketoacyl-synt_C, Thiolase_C, Thiolase_N, adh_short, adh_short_C2]) or FA_synthesis) and not (Gly_radical_scatole or Gly_radical or Gly_430_pcre or Gly_8-9_TMA))
porA: (Fer4_7 and TPP_enzyme_C and POR and POR_N and PFOR_II and not (EKR or Fer4_16))

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c00028_NZ_JPMD.. - Region 1 - Rnf_complex

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Location: 105,424 - 130,251 nt. (total: 24,828 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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c00035_NZ_JPMD.. - Region 1 - OD_AA_metabolism

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Location: 7,898 - 35,216 nt. (total: 27,319 nt) Show pHMM detection rules used

OD_AA_metabolism: (minimum(1, [PFOR_II, POR, POR_N]) 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 (Gly_radical_scatole or Gly_radical or Gly_430_pcre or Gly_8-9_TMA))

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c00038_NZ_JPMD.. - Region 1 - TMA

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Location: 107,609 - 153,936 nt. (total: 46,328 nt) Show pHMM detection rules used

Region on contig edge.

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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c00039_NZ_JPMD.. - Region 1 - Putrescine2spermidine

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Location: 14,850 - 36,546 nt. (total: 21,697 nt) Show pHMM detection rules used

Putrescine2spermidine: (minimum(2, [AdoMet_dc, Spermine_synt_N, Spermine_synth]) or (Orn_DAP_Arg_deC and Sacchrp_dh_C))

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c00055_NZ_JPMD.. - Region 1 - Pyruvate2acetate-formate

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Location: 1 - 15,831 nt. (total: 15,831 nt) Show pHMM detection rules used

Region on contig edge.

Pyruvate2acetate-formate: ((PFL_acetate1 or PFL_acetate2) and Radical_SAM)

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