8P4H
Crystal structure of human methionine adenosyltransferase 2A (MAT2A) in complex with SAM and allosteric compound IDEAYA cmpd A
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0004478 | molecular_function | methionine adenosyltransferase activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005829 | cellular_component | cytosol |
| A | 0006556 | biological_process | S-adenosylmethionine biosynthetic process |
| A | 0006730 | biological_process | one-carbon metabolic process |
| A | 0016740 | molecular_function | transferase activity |
| A | 0031503 | biological_process | protein-containing complex localization |
| A | 0031669 | biological_process | cellular response to nutrient levels |
| A | 0034198 | biological_process | cellular response to amino acid starvation |
| A | 0034214 | biological_process | protein hexamerization |
| A | 0036094 | molecular_function | small molecule binding |
| A | 0038202 | biological_process | TORC1 signaling |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0048269 | cellular_component | methionine adenosyltransferase complex |
| A | 0051259 | biological_process | protein complex oligomerization |
| A | 0051291 | biological_process | protein heterooligomerization |
| A | 0061431 | biological_process | cellular response to methionine |
| A | 0061462 | biological_process | protein localization to lysosome |
| A | 1904262 | biological_process | negative regulation of TORC1 signaling |
| A | 1904263 | biological_process | positive regulation of TORC1 signaling |
| A | 1990830 | biological_process | cellular response to leukemia inhibitory factor |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0004478 | molecular_function | methionine adenosyltransferase activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005829 | cellular_component | cytosol |
| B | 0006556 | biological_process | S-adenosylmethionine biosynthetic process |
| B | 0006730 | biological_process | one-carbon metabolic process |
| B | 0016740 | molecular_function | transferase activity |
| B | 0031503 | biological_process | protein-containing complex localization |
| B | 0031669 | biological_process | cellular response to nutrient levels |
| B | 0034198 | biological_process | cellular response to amino acid starvation |
| B | 0034214 | biological_process | protein hexamerization |
| B | 0036094 | molecular_function | small molecule binding |
| B | 0038202 | biological_process | TORC1 signaling |
| B | 0042802 | molecular_function | identical protein binding |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0048269 | cellular_component | methionine adenosyltransferase complex |
| B | 0051259 | biological_process | protein complex oligomerization |
| B | 0051291 | biological_process | protein heterooligomerization |
| B | 0061431 | biological_process | cellular response to methionine |
| B | 0061462 | biological_process | protein localization to lysosome |
| B | 1904262 | biological_process | negative regulation of TORC1 signaling |
| B | 1904263 | biological_process | positive regulation of TORC1 signaling |
| B | 1990830 | biological_process | cellular response to leukemia inhibitory factor |
| C | 0000166 | molecular_function | nucleotide binding |
| C | 0004478 | molecular_function | methionine adenosyltransferase activity |
| C | 0005515 | molecular_function | protein binding |
| C | 0005524 | molecular_function | ATP binding |
| C | 0005829 | cellular_component | cytosol |
| C | 0006556 | biological_process | S-adenosylmethionine biosynthetic process |
| C | 0006730 | biological_process | one-carbon metabolic process |
| C | 0016740 | molecular_function | transferase activity |
| C | 0031503 | biological_process | protein-containing complex localization |
| C | 0031669 | biological_process | cellular response to nutrient levels |
| C | 0034198 | biological_process | cellular response to amino acid starvation |
| C | 0034214 | biological_process | protein hexamerization |
| C | 0036094 | molecular_function | small molecule binding |
| C | 0038202 | biological_process | TORC1 signaling |
| C | 0042802 | molecular_function | identical protein binding |
| C | 0046872 | molecular_function | metal ion binding |
| C | 0048269 | cellular_component | methionine adenosyltransferase complex |
| C | 0051259 | biological_process | protein complex oligomerization |
| C | 0051291 | biological_process | protein heterooligomerization |
| C | 0061431 | biological_process | cellular response to methionine |
| C | 0061462 | biological_process | protein localization to lysosome |
| C | 1904262 | biological_process | negative regulation of TORC1 signaling |
| C | 1904263 | biological_process | positive regulation of TORC1 signaling |
| C | 1990830 | biological_process | cellular response to leukemia inhibitory factor |
| D | 0000166 | molecular_function | nucleotide binding |
| D | 0004478 | molecular_function | methionine adenosyltransferase activity |
| D | 0005515 | molecular_function | protein binding |
| D | 0005524 | molecular_function | ATP binding |
| D | 0005829 | cellular_component | cytosol |
| D | 0006556 | biological_process | S-adenosylmethionine biosynthetic process |
| D | 0006730 | biological_process | one-carbon metabolic process |
| D | 0016740 | molecular_function | transferase activity |
| D | 0031503 | biological_process | protein-containing complex localization |
| D | 0031669 | biological_process | cellular response to nutrient levels |
| D | 0034198 | biological_process | cellular response to amino acid starvation |
| D | 0034214 | biological_process | protein hexamerization |
| D | 0036094 | molecular_function | small molecule binding |
| D | 0038202 | biological_process | TORC1 signaling |
| D | 0042802 | molecular_function | identical protein binding |
| D | 0046872 | molecular_function | metal ion binding |
| D | 0048269 | cellular_component | methionine adenosyltransferase complex |
| D | 0051259 | biological_process | protein complex oligomerization |
| D | 0051291 | biological_process | protein heterooligomerization |
| D | 0061431 | biological_process | cellular response to methionine |
| D | 0061462 | biological_process | protein localization to lysosome |
| D | 1904262 | biological_process | negative regulation of TORC1 signaling |
| D | 1904263 | biological_process | positive regulation of TORC1 signaling |
| D | 1990830 | biological_process | cellular response to leukemia inhibitory factor |
Functional Information from PROSITE/UniProt
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 8 |
| Details | BINDING: in other chain => ECO:0000305|PubMed:25075345, ECO:0000305|PubMed:26858410, ECO:0007744|PDB:4NDN, ECO:0007744|PDB:5A19 |
| Chain | Residue | Details |
| A | HIS29 | |
| A | ARG264 | |
| B | HIS29 | |
| B | ARG264 | |
| C | HIS29 | |
| C | ARG264 | |
| D | HIS29 | |
| D | ARG264 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000305|PubMed:25075345, ECO:0000305|PubMed:26858410, ECO:0007744|PDB:4KTT, ECO:0007744|PDB:4NDN, ECO:0007744|PDB:5A19, ECO:0007744|PDB:5A1G, ECO:0007744|PDB:5A1I |
| Chain | Residue | Details |
| A | ASP31 | |
| B | ASP31 | |
| C | ASP31 | |
| D | ASP31 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000250|UniProtKB:P0A817 |
| Chain | Residue | Details |
| A | GLU57 | |
| B | GLU57 | |
| C | GLU57 | |
| D | GLU57 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 4 |
| Details | BINDING: in other chain => ECO:0000305|PubMed:25075345, ECO:0007744|PDB:4NDN |
| Chain | Residue | Details |
| A | GLU70 | |
| B | GLU70 | |
| C | GLU70 | |
| D | GLU70 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 4 |
| Details | BINDING: in other chain => ECO:0000305|PubMed:25075345 |
| Chain | Residue | Details |
| A | GLN113 | |
| B | GLN113 | |
| C | GLN113 | |
| D | GLN113 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 4 |
| Details | BINDING: in other chain => ECO:0000305|PubMed:25075345, ECO:0000305|PubMed:26858410, ECO:0007744|PDB:4KTT, ECO:0007744|PDB:4NDN, ECO:0007744|PDB:5A19, ECO:0007744|PDB:5A1G, ECO:0007744|PDB:5A1I |
| Chain | Residue | Details |
| A | ASP179 | |
| B | ASP179 | |
| C | ASP179 | |
| D | ASP179 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 4 |
| Details | BINDING: in other chain => ECO:0000305|PubMed:25075345, ECO:0000305|PubMed:26858410, ECO:0007744|PDB:4KTT, ECO:0007744|PDB:4NDN, ECO:0007744|PDB:5A1G, ECO:0007744|PDB:5A1I |
| Chain | Residue | Details |
| A | SER247 | |
| B | SER247 | |
| C | SER247 | |
| D | SER247 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000305|PubMed:25075345, ECO:0000305|PubMed:26858410, ECO:0007744|PDB:4NDN, ECO:0007744|PDB:5A1I |
| Chain | Residue | Details |
| A | ASP258 | |
| B | ASP258 | |
| C | ASP258 | |
| D | ASP258 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000305|PubMed:25075345, ECO:0007744|PDB:4NDN |
| Chain | Residue | Details |
| A | ALA281 | |
| B | ALA281 | |
| C | ALA281 | |
| D | ALA281 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 8 |
| Details | BINDING: BINDING => ECO:0000305|PubMed:25075345, ECO:0000305|PubMed:26858410, ECO:0007744|PDB:4NDN |
| Chain | Residue | Details |
| A | LYS285 | |
| A | ASP291 | |
| B | LYS285 | |
| B | ASP291 | |
| C | LYS285 | |
| C | ASP291 | |
| D | LYS285 | |
| D | ASP291 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 4 |
| Details | BINDING: in other chain => ECO:0000250|UniProtKB:P0A817 |
| Chain | Residue | Details |
| A | LYS289 | |
| B | LYS289 | |
| C | LYS289 | |
| D | LYS289 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 4 |
| Details | MOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861 |
| Chain | Residue | Details |
| A | LYS81 | |
| B | LYS81 | |
| C | LYS81 | |
| D | LYS81 |
| site_id | SWS_FT_FI13 |
| Number of Residues | 4 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648 |
| Chain | Residue | Details |
| A | SER114 | |
| B | SER114 | |
| C | SER114 | |
| D | SER114 |
| site_id | SWS_FT_FI14 |
| Number of Residues | 4 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| A | SER384 | |
| B | SER384 | |
| C | SER384 | |
| D | SER384 |
| site_id | SWS_FT_FI15 |
| Number of Residues | 12 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733 |
| Chain | Residue | Details |
| A | LYS228 | |
| D | LYS228 | |
| D | LYS234 | |
| A | LYS234 | |
| B | LYS228 | |
| B | LYS234 | |
| C | LYS228 | |
| C | LYS234 |
Catalytic Information from CSA
| site_id | MCSA1 |
| Number of Residues | 14 |
| Details | M-CSA 9 |
| Chain | Residue | Details |
| A | HIS29 | proton acceptor, proton donor |
| A | VAL268 | electrostatic stabiliser |
| A | ASP269 | electrostatic stabiliser |
| A | LYS289 | electrostatic stabiliser |
| A | SER293 | electrostatic stabiliser |
| A | ALA295 | electrostatic stabiliser |
| A | ASP31 | electrostatic stabiliser, metal ligand |
| A | LYS32 | electrostatic stabiliser |
| A | GLU57 | metal ligand |
| A | GLU70 | electrostatic stabiliser, steric role |
| A | LYS181 | electrostatic stabiliser |
| A | GLY254 | steric role |
| A | THR262 | electrostatic stabiliser, metal ligand, steric role |
| A | GLY263 | metal ligand |
| site_id | MCSA2 |
| Number of Residues | 14 |
| Details | M-CSA 9 |
| Chain | Residue | Details |
| B | HIS29 | proton acceptor, proton donor |
| B | VAL268 | electrostatic stabiliser |
| B | ASP269 | electrostatic stabiliser |
| B | LYS289 | electrostatic stabiliser |
| B | SER293 | electrostatic stabiliser |
| B | ALA295 | electrostatic stabiliser |
| B | ASP31 | electrostatic stabiliser, metal ligand |
| B | LYS32 | electrostatic stabiliser |
| B | GLU57 | metal ligand |
| B | GLU70 | electrostatic stabiliser, steric role |
| B | LYS181 | electrostatic stabiliser |
| B | GLY254 | steric role |
| B | THR262 | electrostatic stabiliser, metal ligand, steric role |
| B | GLY263 | metal ligand |
| site_id | MCSA3 |
| Number of Residues | 14 |
| Details | M-CSA 9 |
| Chain | Residue | Details |
| C | HIS29 | proton acceptor, proton donor |
| C | VAL268 | electrostatic stabiliser |
| C | ASP269 | electrostatic stabiliser |
| C | LYS289 | electrostatic stabiliser |
| C | SER293 | electrostatic stabiliser |
| C | ALA295 | electrostatic stabiliser |
| C | ASP31 | electrostatic stabiliser, metal ligand |
| C | LYS32 | electrostatic stabiliser |
| C | GLU57 | metal ligand |
| C | GLU70 | electrostatic stabiliser, steric role |
| C | LYS181 | electrostatic stabiliser |
| C | GLY254 | steric role |
| C | THR262 | electrostatic stabiliser, metal ligand, steric role |
| C | GLY263 | metal ligand |
| site_id | MCSA4 |
| Number of Residues | 14 |
| Details | M-CSA 9 |
| Chain | Residue | Details |
| D | HIS29 | proton acceptor, proton donor |
| D | VAL268 | electrostatic stabiliser |
| D | ASP269 | electrostatic stabiliser |
| D | LYS289 | electrostatic stabiliser |
| D | SER293 | electrostatic stabiliser |
| D | ALA295 | electrostatic stabiliser |
| D | ASP31 | electrostatic stabiliser, metal ligand |
| D | LYS32 | electrostatic stabiliser |
| D | GLU57 | metal ligand |
| D | GLU70 | electrostatic stabiliser, steric role |
| D | LYS181 | electrostatic stabiliser |
| D | GLY254 | steric role |
| D | THR262 | electrostatic stabiliser, metal ligand, steric role |
| D | GLY263 | metal ligand |
