| MMDBm0000007 | Acinetobacter pittii ANC 4052 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000095 | Bradyrhizobium elkanii USDA 76 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000097 | Brevibacillus brevis NBRC 100599 | Eubacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000112 | Clostridioides difficile R20291 | Eubacteria | Firmicutes | Human | Metabolic reconstruction | VMH |
| MMDBm0000116 | Clostridium beijerinckii NCIMB 8052 | Eubacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000136 | Clostridium saccharoperbutylacetonicum N1-4(HMT) | Eubacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000148 | Dysgonomonas gadei ATCC BAA-286 | Eubacteria | Bacteroidetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000340 | Azotobacter vinelandii | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0000411 | Rhodobacter capsulatus | Eubacteria | Proteobacteria | Human | Not Available | RHEA |
| MMDBm0000474 | Clostridium pasteurianum | Eubacteria | Firmicutes | Not Available | Not Available | RHEA |
| MMDBm0000583 | Saccharomyces cerevisiae | Fungi | Ascomycota | Human Feces | Unknown | YMDB |
| MMDBm0000793 | Clostridium hiranonis | Eubacteria | Firmicutes | Human | Metabolic reconstruction | VMH |
| MMDBm0001052 | Clostridium saccharoperbutylacetonicum | Eubacteria | Firmicutes | Not Available | Metabolic reconstruction | VMH |
| MMDBm0001066 | Klebsiella pneumoniae | Eubacteria | Proteobacteria | Human | Not Available | RHEA |
| MMDBm0001067 | Klebsiella variicola | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001188 | Acinetobacter baumannii AB0057 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0001257 | Bacillus clausii KSM-K16 | Eubacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001470 | Clostridium difficile CD196 | Eubacteria | Firmicutes | Human | Metabolic reconstruction | VMH |
| MMDBm0001529 | Delftia acidovorans SPH-1 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001794 | Lysinibacillus sphaericus C3-41 | Eubacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001810 | Mesorhizobium loti MAFF303099 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001818 | Methanocaldococcus jannaschii DSM 2661 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0001838 | Methanopyrus kandleri AV19 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0001843 | Methanosarcina acetivorans C2A | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0001844 | Methanosarcina mazei Go1 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
