5M1D
Crystal structure of N-terminally tagged UbiD from E. coli reconstituted with prFMN cofactor
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0005886 | cellular_component | plasma membrane |
| A | 0006744 | biological_process | ubiquinone biosynthetic process |
| A | 0008694 | molecular_function | 3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity |
| A | 0016831 | molecular_function | carboxy-lyase activity |
| A | 0030145 | molecular_function | manganese ion binding |
| A | 0032150 | biological_process | ubiquinone biosynthetic process from chorismate |
| A | 0034214 | biological_process | protein hexamerization |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0120233 | molecular_function | prenyl-FMNH2 binding |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0005886 | cellular_component | plasma membrane |
| B | 0006744 | biological_process | ubiquinone biosynthetic process |
| B | 0008694 | molecular_function | 3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity |
| B | 0016831 | molecular_function | carboxy-lyase activity |
| B | 0030145 | molecular_function | manganese ion binding |
| B | 0032150 | biological_process | ubiquinone biosynthetic process from chorismate |
| B | 0034214 | biological_process | protein hexamerization |
| B | 0042802 | molecular_function | identical protein binding |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0120233 | molecular_function | prenyl-FMNH2 binding |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0005829 | cellular_component | cytosol |
| C | 0005886 | cellular_component | plasma membrane |
| C | 0006744 | biological_process | ubiquinone biosynthetic process |
| C | 0008694 | molecular_function | 3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity |
| C | 0016831 | molecular_function | carboxy-lyase activity |
| C | 0030145 | molecular_function | manganese ion binding |
| C | 0032150 | biological_process | ubiquinone biosynthetic process from chorismate |
| C | 0034214 | biological_process | protein hexamerization |
| C | 0042802 | molecular_function | identical protein binding |
| C | 0046872 | molecular_function | metal ion binding |
| C | 0120233 | molecular_function | prenyl-FMNH2 binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | binding site for residue MN A 501 |
| Chain | Residue |
| A | ASN175 |
| A | GLU241 |
| A | 4LU502 |
| A | NA503 |
| site_id | AC2 |
| Number of Residues | 15 |
| Details | binding site for residue 4LU A 502 |
| Chain | Residue |
| A | ARG192 |
| A | LEU194 |
| A | ARG197 |
| A | GLY198 |
| A | ALA231 |
| A | VAL232 |
| A | GLU241 |
| A | MN501 |
| A | NA503 |
| A | HOH604 |
| A | THR160 |
| A | ASN175 |
| A | ILE178 |
| A | TYR179 |
| A | ARG180 |
| site_id | AC3 |
| Number of Residues | 7 |
| Details | binding site for residue NA A 503 |
| Chain | Residue |
| A | LEU176 |
| A | ALA231 |
| A | THR233 |
| A | GLU241 |
| A | MN501 |
| A | 4LU502 |
| A | HOH604 |
| site_id | AC4 |
| Number of Residues | 6 |
| Details | binding site for residue MN B 501 |
| Chain | Residue |
| B | ASN175 |
| B | GLU241 |
| B | 4LU502 |
| B | NA503 |
| B | HOH610 |
| B | HOH615 |
| site_id | AC5 |
| Number of Residues | 17 |
| Details | binding site for residue 4LU B 502 |
| Chain | Residue |
| B | THR160 |
| B | ASN175 |
| B | LEU176 |
| B | ILE178 |
| B | TYR179 |
| B | ARG180 |
| B | ARG192 |
| B | LEU194 |
| B | ARG197 |
| B | GLY198 |
| B | ALA231 |
| B | VAL232 |
| B | GLU241 |
| B | MN501 |
| B | NA503 |
| B | HOH610 |
| B | HOH657 |
| site_id | AC6 |
| Number of Residues | 6 |
| Details | binding site for residue NA B 503 |
| Chain | Residue |
| B | LEU176 |
| B | ALA231 |
| B | GLU241 |
| B | MN501 |
| B | 4LU502 |
| B | HOH657 |
| site_id | AC7 |
| Number of Residues | 3 |
| Details | binding site for residue SO4 B 504 |
| Chain | Residue |
| B | LEU389 |
| B | ARG390 |
| B | GLN391 |
| site_id | AC8 |
| Number of Residues | 4 |
| Details | binding site for residue MN C 501 |
| Chain | Residue |
| C | ASN175 |
| C | GLU241 |
| C | 4LU502 |
| C | NA503 |
| site_id | AC9 |
| Number of Residues | 16 |
| Details | binding site for residue 4LU C 502 |
| Chain | Residue |
| C | THR160 |
| C | ASN175 |
| C | LEU176 |
| C | ILE178 |
| C | TYR179 |
| C | ARG180 |
| C | ARG192 |
| C | LEU194 |
| C | ARG197 |
| C | GLY198 |
| C | ALA231 |
| C | VAL232 |
| C | GLU241 |
| C | THR320 |
| C | MN501 |
| C | NA503 |
| site_id | AD1 |
| Number of Residues | 5 |
| Details | binding site for residue NA C 503 |
| Chain | Residue |
| C | LEU176 |
| C | ALA231 |
| C | GLU241 |
| C | MN501 |
| C | 4LU502 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 3 |
| Details | ACT_SITE: Proton acceptor => ECO:0000255|HAMAP-Rule:MF_01636, ECO:0000305|PubMed:28057757 |
| Chain | Residue | Details |
| A | ASP290 | |
| B | ASP290 | |
| C | ASP290 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 15 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_01636, ECO:0000269|PubMed:28057757, ECO:0007744|PDB:5M1D, ECO:0007744|PDB:5M1E |
| Chain | Residue | Details |
| A | ASN175 | |
| B | GLU241 | |
| C | ASN175 | |
| C | ILE178 | |
| C | ARG192 | |
| C | ARG197 | |
| C | GLU241 | |
| A | ILE178 | |
| A | ARG192 | |
| A | ARG197 | |
| A | GLU241 | |
| B | ASN175 | |
| B | ILE178 | |
| B | ARG192 | |
| B | ARG197 |
