| MMDBm0000011 | Aggregatibacter aphrophilus NJ8700 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0000032 | Bacillus timonensis 10403023 | Eubacteria | Firmicutes | 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 |
| MMDBm0000105 | Citrobacter freundii ATCC 8090 = MTCC 1658 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000160 | Escherichia coli | Eubacteria | Proteobacteria | Human | Unknown | ECMDB |
| MMDBm0000187 | Gemella sanguinis ATCC700632 | Eubacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000190 | Haemophilus parainfluenzae T3T1 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000194 | Klebsiella aerogenes KCTC 2190 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0000277 | Streptococcus salivarius JIM8777 | Eubacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000368 | Shigella flexneri | Eubacteria | Proteobacteria | Human | Not Available | RHEA |
| MMDBm0000401 | Acidithiobacillus ferrooxidans | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0000409 | Capnocytophaga ochracea | Eubacteria | Bacteroidetes | Human | Metabolic reconstruction | VMH |
| MMDBm0000411 | Rhodobacter capsulatus | Eubacteria | Proteobacteria | Human | Not Available | RHEA |
| MMDBm0000413 | Rhodospirillum rubrum | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0001162 | Acaryochloris marina MBIC11017 | Eubacteria | Cyanobacteria | Not Available | Not Available | RHEA |
| MMDBm0001170 | Acidiphilium cryptum JF-5 | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0001172 | Acidithiobacillus ferrooxidans ATCC 23270 | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0001191 | Actinobacillus pleuropneumoniae serovar 5b str. L20 | Eubacteria | Proteobacteria | Pig | Metabolic reconstruction | VMH |
| MMDBm0001204 | Rhodoferax ferrireducens T118 | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0001212 | Alkalilimnicola ehrlichii MLHE-1 | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0001215 | Allochromatium vinosum DSM 180 | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0001220 | Anabaena variabilis ATCC 29413 | Eubacteria | Cyanobacteria | Not Available | Not Available | RHEA |
| MMDBm0001308 | Bradyrhizobium japonicum USDA 110 | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0001309 | Bradyrhizobium sp. ORS278 | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
