5ESU
Crystal Structure of M. tuberculosis MenD bound to Mg2+ and Covalent Intermediate II (a ThDP + de-carboxylated 2-oxoglutarate + Isochorismate adduct)
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0000287 | molecular_function | magnesium ion binding |
A | 0005886 | cellular_component | plasma membrane |
A | 0009234 | biological_process | menaquinone biosynthetic process |
A | 0016740 | molecular_function | transferase activity |
A | 0030145 | molecular_function | manganese ion binding |
A | 0030976 | molecular_function | thiamine pyrophosphate binding |
A | 0046872 | molecular_function | metal ion binding |
A | 0070204 | molecular_function | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity |
B | 0000287 | molecular_function | magnesium ion binding |
B | 0005886 | cellular_component | plasma membrane |
B | 0009234 | biological_process | menaquinone biosynthetic process |
B | 0016740 | molecular_function | transferase activity |
B | 0030145 | molecular_function | manganese ion binding |
B | 0030976 | molecular_function | thiamine pyrophosphate binding |
B | 0046872 | molecular_function | metal ion binding |
B | 0070204 | molecular_function | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity |
C | 0000287 | molecular_function | magnesium ion binding |
C | 0005886 | cellular_component | plasma membrane |
C | 0009234 | biological_process | menaquinone biosynthetic process |
C | 0016740 | molecular_function | transferase activity |
C | 0030145 | molecular_function | manganese ion binding |
C | 0030976 | molecular_function | thiamine pyrophosphate binding |
C | 0046872 | molecular_function | metal ion binding |
C | 0070204 | molecular_function | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity |
D | 0000287 | molecular_function | magnesium ion binding |
D | 0005886 | cellular_component | plasma membrane |
D | 0009234 | biological_process | menaquinone biosynthetic process |
D | 0016740 | molecular_function | transferase activity |
D | 0030145 | molecular_function | manganese ion binding |
D | 0030976 | molecular_function | thiamine pyrophosphate binding |
D | 0046872 | molecular_function | metal ion binding |
D | 0070204 | molecular_function | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 5 |
Details | binding site for residue MG A 601 |
Chain | Residue |
A | ASP440 |
A | ASP469 |
A | GLY472 |
A | FMT602 |
A | HOH727 |
site_id | AC2 |
Number of Residues | 5 |
Details | binding site for residue FMT A 602 |
Chain | Residue |
A | HOH727 |
A | GLY439 |
A | LEU441 |
A | THR442 |
A | MG601 |
site_id | AC3 |
Number of Residues | 5 |
Details | binding site for residue FMT B 601 |
Chain | Residue |
B | ARG97 |
B | GLY276 |
B | THR299 |
B | HOH713 |
B | HOH757 |
site_id | AC4 |
Number of Residues | 35 |
Details | binding site for residue TOI C 601 |
Chain | Residue |
B | PRO27 |
B | GLY28 |
B | SER29 |
B | ARG30 |
B | GLU55 |
B | THR78 |
B | ARG107 |
B | ASN117 |
B | GLN118 |
C | ARG282 |
C | ALA376 |
C | SER377 |
C | ASN378 |
C | PRO379 |
C | ARG381 |
C | ARG399 |
C | ALA402 |
C | GLY403 |
C | ILE404 |
C | ASP405 |
C | GLY439 |
C | ASP440 |
C | LEU441 |
C | THR442 |
C | ASP469 |
C | GLY471 |
C | GLY472 |
C | GLY473 |
C | ILE474 |
C | LEU478 |
C | MG602 |
C | HOH724 |
C | HOH735 |
C | HOH744 |
C | HOH751 |
site_id | AC5 |
Number of Residues | 5 |
Details | binding site for residue MG C 602 |
Chain | Residue |
C | ASP440 |
C | ASP469 |
C | GLY471 |
C | TOI601 |
C | HOH724 |
site_id | AC6 |
Number of Residues | 7 |
Details | binding site for residue BME C 603 |
Chain | Residue |
C | LEU25 |
C | CYS26 |
C | GLU55 |
C | ALA76 |
C | MET77 |
C | THR78 |
C | ALA82 |
site_id | AC7 |
Number of Residues | 5 |
Details | binding site for residue MG D 601 |
Chain | Residue |
D | ASP440 |
D | ASP469 |
D | GLY471 |
D | TOI602 |
D | HOH755 |
site_id | AC8 |
Number of Residues | 39 |
Details | binding site for residue TOI D 602 |
Chain | Residue |
D | MG601 |
D | HOH703 |
D | HOH751 |
D | HOH755 |
D | HOH789 |
D | HOH800 |
D | HOH838 |
A | PRO27 |
A | GLY28 |
A | SER29 |
A | ARG30 |
A | GLU55 |
A | THR78 |
A | ARG107 |
A | ASN117 |
A | GLN118 |
A | HOH800 |
D | ARG282 |
D | ALA376 |
D | SER377 |
D | ASN378 |
D | PRO379 |
D | ARG381 |
D | ARG399 |
D | ALA402 |
D | GLY403 |
D | ILE404 |
D | ASP405 |
D | GLY439 |
D | ASP440 |
D | LEU441 |
D | THR442 |
D | ASP469 |
D | GLY471 |
D | GLY472 |
D | GLY473 |
D | ILE474 |
D | PHE475 |
D | LEU478 |
site_id | AC9 |
Number of Residues | 7 |
Details | binding site for residue BME D 603 |
Chain | Residue |
D | LEU25 |
D | CYS26 |
D | ALA58 |
D | ALA76 |
D | MET77 |
D | ALA82 |
D | LEU86 |