2DKJ
Crystal Structure of T.th.HB8 Serine Hydroxymethyltransferase
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0004372 | molecular_function | glycine hydroxymethyltransferase activity |
A | 0005737 | cellular_component | cytoplasm |
A | 0005829 | cellular_component | cytosol |
A | 0006545 | biological_process | glycine biosynthetic process |
A | 0006565 | biological_process | L-serine catabolic process |
A | 0006730 | biological_process | one-carbon metabolic process |
A | 0008270 | molecular_function | zinc ion binding |
A | 0008652 | biological_process | amino acid biosynthetic process |
A | 0016740 | molecular_function | transferase activity |
A | 0019264 | biological_process | glycine biosynthetic process from serine |
A | 0030170 | molecular_function | pyridoxal phosphate binding |
A | 0035999 | biological_process | tetrahydrofolate interconversion |
A | 0046653 | biological_process | tetrahydrofolate metabolic process |
A | 0046655 | biological_process | folic acid metabolic process |
A | 0050897 | molecular_function | cobalt ion binding |
A | 0070905 | molecular_function | serine binding |
B | 0004372 | molecular_function | glycine hydroxymethyltransferase activity |
B | 0005737 | cellular_component | cytoplasm |
B | 0005829 | cellular_component | cytosol |
B | 0006545 | biological_process | glycine biosynthetic process |
B | 0006565 | biological_process | L-serine catabolic process |
B | 0006730 | biological_process | one-carbon metabolic process |
B | 0008270 | molecular_function | zinc ion binding |
B | 0008652 | biological_process | amino acid biosynthetic process |
B | 0016740 | molecular_function | transferase activity |
B | 0019264 | biological_process | glycine biosynthetic process from serine |
B | 0030170 | molecular_function | pyridoxal phosphate binding |
B | 0035999 | biological_process | tetrahydrofolate interconversion |
B | 0046653 | biological_process | tetrahydrofolate metabolic process |
B | 0046655 | biological_process | folic acid metabolic process |
B | 0050897 | molecular_function | cobalt ion binding |
B | 0070905 | molecular_function | serine binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE SO4 A 2520 |
Chain | Residue |
A | SER31 |
A | SER172 |
A | HIS200 |
A | LYS226 |
A | ARG358 |
A | PLP510 |
B | TYR61 |
B | HOH1846 |
site_id | AC2 |
Number of Residues | 11 |
Details | BINDING SITE FOR RESIDUE SO4 B 1520 |
Chain | Residue |
A | TYR61 |
A | HOH2589 |
A | HOH2597 |
B | SER31 |
B | SER172 |
B | HIS200 |
B | LYS226 |
B | ARG358 |
B | PLP510 |
B | HOH1708 |
A | TYR51 |
site_id | AC3 |
Number of Residues | 17 |
Details | BINDING SITE FOR RESIDUE PLP A 510 |
Chain | Residue |
A | SER93 |
A | GLY94 |
A | SER95 |
A | HIS122 |
A | SER172 |
A | ASP197 |
A | ALA199 |
A | HIS200 |
A | THR223 |
A | HIS225 |
A | LYS226 |
A | SO42520 |
A | HOH2530 |
A | HOH2610 |
B | TYR51 |
B | GLY257 |
B | GLY258 |
site_id | AC4 |
Number of Residues | 18 |
Details | BINDING SITE FOR RESIDUE PLP B 510 |
Chain | Residue |
A | TYR51 |
A | GLY257 |
A | GLY258 |
B | SER93 |
B | GLY94 |
B | SER95 |
B | HIS122 |
B | THR124 |
B | HIS125 |
B | ASP197 |
B | ALA199 |
B | HIS200 |
B | THR223 |
B | HIS225 |
B | LYS226 |
B | SO41520 |
B | HOH1526 |
B | HOH1536 |
Functional Information from PROSITE/UniProt
site_id | PS00096 |
Number of Residues | 17 |
Details | SHMT Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. HVvTSTTHKTLrGPRGG |
Chain | Residue | Details |
A | HIS218-GLY234 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 12 |
Details | BINDING: BINDING => ECO:0000269|Ref.2 |
Chain | Residue | Details |
A | TYR51 | |
B | HIS200 | |
B | HIS225 | |
B | GLY258 | |
A | GLY94 | |
A | SER172 | |
A | HIS200 | |
A | HIS225 | |
A | GLY258 | |
B | TYR51 | |
B | GLY94 | |
B | SER172 |
site_id | SWS_FT_FI2 |
Number of Residues | 6 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00051 |
Chain | Residue | Details |
A | LEU117 | |
A | GLY121 | |
A | GLU242 | |
B | LEU117 | |
B | GLY121 | |
B | GLU242 |
site_id | SWS_FT_FI3 |
Number of Residues | 2 |
Details | SITE: Plays an important role in substrate specificity => ECO:0000255|HAMAP-Rule:MF_00051 |
Chain | Residue | Details |
A | HIS225 | |
B | HIS225 |
site_id | SWS_FT_FI4 |
Number of Residues | 2 |
Details | MOD_RES: N6-(pyridoxal phosphate)lysine => ECO:0000255|HAMAP-Rule:MF_00051, ECO:0000269|Ref.2 |
Chain | Residue | Details |
A | LYS226 | |
B | LYS226 |
Catalytic Information from CSA
site_id | CSA1 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1dfo |
Chain | Residue | Details |
A | ASP197 | |
A | HIS125 |
site_id | CSA2 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dfo |
Chain | Residue | Details |
B | CYS64 |
site_id | CSA3 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1dfo |
Chain | Residue | Details |
B | ASP197 | |
B | HIS125 |
site_id | CSA4 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dfo |
Chain | Residue | Details |
A | CYS64 |
site_id | CSA5 |
Number of Residues | 3 |
Details | Annotated By Reference To The Literature 1dfo |
Chain | Residue | Details |
A | LYS226 | |
A | THR223 | |
A | GLU53 |
site_id | CSA6 |
Number of Residues | 3 |
Details | Annotated By Reference To The Literature 1dfo |
Chain | Residue | Details |
B | LYS226 | |
B | THR223 | |
B | GLU53 |
site_id | CSA7 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1dfo |
Chain | Residue | Details |
A | LYS226 | |
A | HIS200 |
site_id | CSA8 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1dfo |
Chain | Residue | Details |
B | LYS226 | |
B | HIS200 |