7BSJ
Crystal structure of human ME2 R484W
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004470 | molecular_function | malic enzyme activity |
| A | 0004471 | molecular_function | malate dehydrogenase (decarboxylating) (NAD+) activity |
| A | 0004473 | molecular_function | malate dehydrogenase (decarboxylating) (NADP+) activity |
| A | 0005739 | cellular_component | mitochondrion |
| A | 0005759 | cellular_component | mitochondrial matrix |
| A | 0006090 | biological_process | pyruvate metabolic process |
| A | 0006108 | biological_process | malate metabolic process |
| A | 0008948 | molecular_function | oxaloacetate decarboxylase activity |
| A | 0009055 | molecular_function | electron transfer activity |
| A | 0016491 | molecular_function | oxidoreductase activity |
| A | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
| A | 0043231 | cellular_component | intracellular membrane-bounded organelle |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0051287 | molecular_function | NAD binding |
| A | 1902031 | biological_process | regulation of NADP metabolic process |
| B | 0004470 | molecular_function | malic enzyme activity |
| B | 0004471 | molecular_function | malate dehydrogenase (decarboxylating) (NAD+) activity |
| B | 0004473 | molecular_function | malate dehydrogenase (decarboxylating) (NADP+) activity |
| B | 0005739 | cellular_component | mitochondrion |
| B | 0005759 | cellular_component | mitochondrial matrix |
| B | 0006090 | biological_process | pyruvate metabolic process |
| B | 0006108 | biological_process | malate metabolic process |
| B | 0008948 | molecular_function | oxaloacetate decarboxylase activity |
| B | 0009055 | molecular_function | electron transfer activity |
| B | 0016491 | molecular_function | oxidoreductase activity |
| B | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
| B | 0043231 | cellular_component | intracellular membrane-bounded organelle |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0051287 | molecular_function | NAD binding |
| B | 1902031 | biological_process | regulation of NADP metabolic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 26 |
| Details | binding site for residue NAD A 601 |
| Chain | Residue |
| A | ARG165 |
| A | GLU314 |
| A | ALA315 |
| A | PHE344 |
| A | ASP345 |
| A | LYS346 |
| A | VAL392 |
| A | ALA393 |
| A | GLY394 |
| A | ALA395 |
| A | LEU398 |
| A | LEU167 |
| A | LEU419 |
| A | ASN421 |
| A | GLY446 |
| A | GLY465 |
| A | ASN466 |
| A | ASN467 |
| A | TTN605 |
| A | GLY168 |
| A | ASN259 |
| A | THR283 |
| A | LEU310 |
| A | GLY311 |
| A | ALA312 |
| A | GLY313 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | binding site for residue MG A 602 |
| Chain | Residue |
| A | GLU255 |
| A | ASP256 |
| A | ASP279 |
| A | TTN605 |
| site_id | AC3 |
| Number of Residues | 13 |
| Details | binding site for residue NAD A 603 |
| Chain | Residue |
| A | LYS156 |
| A | GLY192 |
| A | ILE193 |
| A | ARG194 |
| A | ARG197 |
| A | ILE479 |
| A | LEU480 |
| A | ASN482 |
| A | ARG542 |
| A | TYR552 |
| A | GLU555 |
| A | ARG556 |
| B | ARG248 |
| site_id | AC4 |
| Number of Residues | 11 |
| Details | binding site for residue FUM A 604 |
| Chain | Residue |
| A | GLN64 |
| A | ARG67 |
| A | ILE88 |
| A | ARG91 |
| A | LEU95 |
| A | HOH701 |
| A | HOH702 |
| A | HOH703 |
| A | HOH705 |
| B | PHE127 |
| B | ARG128 |
| site_id | AC5 |
| Number of Residues | 12 |
| Details | binding site for residue TTN A 605 |
| Chain | Residue |
| A | TYR112 |
| A | ARG165 |
| A | LEU167 |
| A | LYS183 |
| A | GLU255 |
| A | ASP256 |
| A | ASP279 |
| A | ASN421 |
| A | ASN466 |
| A | ASN467 |
| A | NAD601 |
| A | MG602 |
| site_id | AC6 |
| Number of Residues | 26 |
| Details | binding site for residue NAD B 1601 |
| Chain | Residue |
| B | ARG165 |
| B | LEU167 |
| B | GLY168 |
| B | ASN259 |
| B | THR283 |
| B | LEU310 |
| B | GLY311 |
| B | ALA312 |
| B | GLY313 |
| B | GLU314 |
| B | ALA315 |
| B | ASP345 |
| B | LYS346 |
| B | VAL392 |
| B | ALA393 |
| B | GLY394 |
| B | ALA395 |
| B | LEU398 |
| B | LEU419 |
| B | SER420 |
| B | ASN421 |
| B | GLY446 |
| B | GLY465 |
| B | ASN466 |
| B | ASN467 |
| B | TTN1605 |
| site_id | AC7 |
| Number of Residues | 5 |
| Details | binding site for residue MG B 1602 |
| Chain | Residue |
| B | ARG165 |
| B | GLU255 |
| B | ASP256 |
| B | ASP279 |
| B | TTN1605 |
| site_id | AC8 |
| Number of Residues | 17 |
| Details | binding site for residue NAD B 1603 |
| Chain | Residue |
| A | ASP244 |
| A | ARG245 |
| A | TYR246 |
| A | GLY247 |
| B | HIS154 |
| B | LYS156 |
| B | GLY192 |
| B | ILE193 |
| B | ARG194 |
| B | ILE479 |
| B | LEU480 |
| B | ASN482 |
| B | ARG542 |
| B | TYR552 |
| B | ARG556 |
| A | ASN153 |
| A | HIS154 |
| site_id | AC9 |
| Number of Residues | 6 |
| Details | binding site for residue FUM B 1604 |
| Chain | Residue |
| A | PHE127 |
| B | GLN64 |
| B | ARG67 |
| B | ARG91 |
| B | LEU95 |
| B | HOH1705 |
| site_id | AD1 |
| Number of Residues | 12 |
| Details | binding site for residue TTN B 1605 |
| Chain | Residue |
| B | TYR112 |
| B | ARG165 |
| B | LEU167 |
| B | LYS183 |
| B | GLU255 |
| B | ASP256 |
| B | ASP279 |
| B | ASN421 |
| B | ASN466 |
| B | ASN467 |
| B | NAD1601 |
| B | MG1602 |
Functional Information from PROSITE/UniProt
| site_id | PS00331 |
| Number of Residues | 17 |
| Details | MALIC_ENZYMES Malic enzymes signature. FnDDiqGTAaVaLAGLL |
| Chain | Residue | Details |
| A | PHE276-LEU292 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | ACT_SITE: Proton donor => ECO:0000269|PubMed:12962632 |
| Chain | Residue | Details |
| A | TYR112 | |
| B | TYR112 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | ACT_SITE: Proton acceptor => ECO:0000269|PubMed:12962632 |
| Chain | Residue | Details |
| A | LYS183 | |
| B | LYS183 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:12121650, ECO:0000269|PubMed:12962632 |
| Chain | Residue | Details |
| A | ARG67 | |
| A | ARG91 | |
| B | ARG67 | |
| B | ARG91 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 6 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:12962632 |
| Chain | Residue | Details |
| A | ARG165 | |
| A | ASN421 | |
| A | ASN466 | |
| B | ARG165 | |
| B | ASN421 | |
| B | ASN466 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 6 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:10700286, ECO:0000269|PubMed:12121650, ECO:0000269|PubMed:12962632 |
| Chain | Residue | Details |
| A | GLU255 | |
| A | ASP256 | |
| A | ASP279 | |
| B | GLU255 | |
| B | ASP256 | |
| B | ASP279 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:10700286, ECO:0000269|PubMed:12962632 |
| Chain | Residue | Details |
| A | ASN259 | |
| A | GLY311 | |
| B | ASN259 | |
| B | GLY311 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 10 |
| Details | MOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861 |
| Chain | Residue | Details |
| A | LYS156 | |
| B | LYS346 | |
| A | LYS224 | |
| A | LYS240 | |
| A | LYS272 | |
| A | LYS346 | |
| B | LYS156 | |
| B | LYS224 | |
| B | LYS240 | |
| B | LYS272 |
Catalytic Information from CSA
| site_id | MCSA1 |
| Number of Residues | 8 |
| Details | M-CSA 21 |
| Chain | Residue | Details |
| A | TYR112 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
| A | ARG165 | electrostatic stabiliser, hydrogen bond donor |
| A | LYS183 | electrostatic stabiliser, hydrogen bond donor, proton acceptor, proton donor, proton relay |
| A | GLU255 | metal ligand |
| A | ASP256 | metal ligand |
| A | ASP278 | hydrogen bond acceptor, proton acceptor, proton donor |
| A | ASP279 | metal ligand |
| A | ASN421 | electrostatic stabiliser, hydrogen bond donor |
| site_id | MCSA2 |
| Number of Residues | 8 |
| Details | M-CSA 21 |
| Chain | Residue | Details |
| B | TYR112 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
| B | ARG165 | electrostatic stabiliser, hydrogen bond donor |
| B | LYS183 | electrostatic stabiliser, hydrogen bond donor, proton acceptor, proton donor, proton relay |
| B | GLU255 | metal ligand |
| B | ASP256 | metal ligand |
| B | ASP278 | hydrogen bond acceptor, proton acceptor, proton donor |
| B | ASP279 | metal ligand |
| B | ASN421 | electrostatic stabiliser, hydrogen bond donor |
