2P9E
Crystal Structure of G336V mutant of E.coli phosphoglycerate dehydrogenase
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0004617 | molecular_function | phosphoglycerate dehydrogenase activity |
A | 0005829 | cellular_component | cytosol |
A | 0006564 | biological_process | L-serine biosynthetic process |
A | 0008652 | biological_process | amino acid biosynthetic process |
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 | 0042802 | molecular_function | identical protein binding |
A | 0047545 | molecular_function | 2-hydroxyglutarate dehydrogenase activity |
A | 0051287 | molecular_function | NAD binding |
A | 0070403 | molecular_function | NAD+ binding |
A | 0070404 | molecular_function | NADH binding |
A | 0070905 | molecular_function | serine binding |
B | 0004617 | molecular_function | phosphoglycerate dehydrogenase activity |
B | 0005829 | cellular_component | cytosol |
B | 0006564 | biological_process | L-serine biosynthetic process |
B | 0008652 | biological_process | amino acid biosynthetic process |
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 | 0042802 | molecular_function | identical protein binding |
B | 0047545 | molecular_function | 2-hydroxyglutarate dehydrogenase activity |
B | 0051287 | molecular_function | NAD binding |
B | 0070403 | molecular_function | NAD+ binding |
B | 0070404 | molecular_function | NADH binding |
B | 0070905 | molecular_function | serine binding |
C | 0004617 | molecular_function | phosphoglycerate dehydrogenase activity |
C | 0005829 | cellular_component | cytosol |
C | 0006564 | biological_process | L-serine biosynthetic process |
C | 0008652 | biological_process | amino acid biosynthetic process |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
C | 0042802 | molecular_function | identical protein binding |
C | 0047545 | molecular_function | 2-hydroxyglutarate dehydrogenase activity |
C | 0051287 | molecular_function | NAD binding |
C | 0070403 | molecular_function | NAD+ binding |
C | 0070404 | molecular_function | NADH binding |
C | 0070905 | molecular_function | serine binding |
D | 0004617 | molecular_function | phosphoglycerate dehydrogenase activity |
D | 0005829 | cellular_component | cytosol |
D | 0006564 | biological_process | L-serine biosynthetic process |
D | 0008652 | biological_process | amino acid biosynthetic process |
D | 0016491 | molecular_function | oxidoreductase activity |
D | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
D | 0042802 | molecular_function | identical protein binding |
D | 0047545 | molecular_function | 2-hydroxyglutarate dehydrogenase activity |
D | 0051287 | molecular_function | NAD binding |
D | 0070403 | molecular_function | NAD+ binding |
D | 0070404 | molecular_function | NADH binding |
D | 0070905 | molecular_function | serine binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE PO4 B 499 |
Chain | Residue |
B | HIS196 |
B | LEU197 |
B | SER198 |
site_id | AC2 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE PO4 A 500 |
Chain | Residue |
A | LEU142 |
A | ALA143 |
A | ALA144 |
B | ARG60 |
site_id | AC3 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE PO4 C 501 |
Chain | Residue |
D | LEU142 |
D | ALA143 |
D | ALA144 |
C | ARG60 |
C | HOH589 |
site_id | AC4 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE PO4 C 502 |
Chain | Residue |
C | LEU142 |
C | ALA143 |
C | ALA144 |
D | ARG60 |
site_id | AC5 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE PO4 B 503 |
Chain | Residue |
A | ARG60 |
B | LEU142 |
B | ALA143 |
B | ALA144 |
site_id | AC6 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE PO4 A 504 |
Chain | Residue |
A | GLY85 |
A | THR86 |
A | ASN87 |
A | ARG240 |
site_id | AC7 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE PO4 D 505 |
Chain | Residue |
D | ARG60 |
D | SER61 |
D | ALA83 |
site_id | AC8 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE SO4 C 506 |
Chain | Residue |
C | HIS38 |
C | LYS39 |
C | GLY40 |
site_id | AC9 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE PO4 D 507 |
Chain | Residue |
D | HIS38 |
D | LYS39 |
D | GLY40 |
site_id | BC1 |
Number of Residues | 24 |
Details | BINDING SITE FOR RESIDUE NAI A 508 |
Chain | Residue |
A | ILE84 |
A | PHE106 |
A | GLY158 |
A | GLY160 |
A | HIS161 |
A | ILE162 |
A | TYR180 |
A | ASP181 |
A | ILE182 |
A | LYS185 |
A | HIS210 |
A | VAL211 |
A | PRO212 |
A | SER216 |
A | THR217 |
A | MET220 |
A | ALA238 |
A | SER239 |
A | ARG240 |
A | ASP264 |
A | VAL265 |
A | HIS292 |
A | GLY294 |
A | GLY295 |
site_id | BC2 |
Number of Residues | 22 |
Details | BINDING SITE FOR RESIDUE NAI B 509 |
Chain | Residue |
B | ILE84 |
B | PHE106 |
B | ASN108 |
B | VAL112 |
B | TYR159 |
B | GLY160 |
B | HIS161 |
B | ILE162 |
B | ASP181 |
B | ILE182 |
B | HIS210 |
B | VAL211 |
B | PRO212 |
B | SER216 |
B | MET220 |
B | ALA238 |
B | SER239 |
B | ARG240 |
B | ASP264 |
B | HIS292 |
B | GLY294 |
B | GLY295 |
site_id | BC3 |
Number of Residues | 21 |
Details | BINDING SITE FOR RESIDUE NAI C 510 |
Chain | Residue |
C | GLY295 |
C | ILE84 |
C | PHE106 |
C | ASN108 |
C | VAL112 |
C | GLY158 |
C | GLY160 |
C | HIS161 |
C | ILE162 |
C | ASP181 |
C | ILE182 |
C | HIS210 |
C | VAL211 |
C | PRO212 |
C | SER216 |
C | ALA238 |
C | SER239 |
C | ARG240 |
C | ASP264 |
C | HIS292 |
C | GLY294 |
site_id | BC4 |
Number of Residues | 24 |
Details | BINDING SITE FOR RESIDUE NAI D 511 |
Chain | Residue |
D | ASN108 |
D | VAL112 |
D | GLY158 |
D | TYR159 |
D | GLY160 |
D | HIS161 |
D | ILE162 |
D | TYR180 |
D | ASP181 |
D | ILE182 |
D | LYS185 |
D | HIS210 |
D | VAL211 |
D | PRO212 |
D | SER216 |
D | ALA238 |
D | SER239 |
D | ARG240 |
D | ASP264 |
D | VAL265 |
D | HIS292 |
D | GLY294 |
D | GLY295 |
D | HOH558 |
site_id | BC5 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE CIT D 513 |
Chain | Residue |
B | LYS39 |
D | TYR180 |
D | HIS196 |
D | LEU197 |
D | SER198 |
D | GLU225 |
site_id | BC6 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE CIT A 514 |
Chain | Residue |
A | TYR180 |
A | HIS196 |
A | LEU197 |
A | SER198 |
site_id | BC7 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE CIT C 515 |
Chain | Residue |
C | TYR180 |
C | HIS196 |
C | LEU197 |
C | SER198 |
site_id | BC8 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE CIT B 516 |
Chain | Residue |
A | LYS141 |
B | ARG60 |
B | SER61 |
B | ALA83 |
B | ILE84 |
B | GLY85 |
B | ASN108 |
site_id | BC9 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE CIT C 517 |
Chain | Residue |
C | ARG60 |
C | SER61 |
C | ALA83 |
C | ILE84 |
C | ASN108 |
C | HOH553 |
D | LYS141 |
site_id | CC1 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE CIT A 518 |
Chain | Residue |
A | PHE37 |
A | HIS38 |
A | LYS39 |
A | GLY40 |
A | ALA41 |
A | LEU42 |
Functional Information from PROSITE/UniProt
site_id | PS00065 |
Number of Residues | 28 |
Details | D_2_HYDROXYACID_DH_1 D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature. LGIIGyGHIGtqlgilaeslgmy.VYfYD |
Chain | Residue | Details |
A | LEU154-ASP181 |
site_id | PS00670 |
Number of Residues | 23 |
Details | D_2_HYDROXYACID_DH_2 D-isomer specific 2-hydroxyacid dehydrogenases signature 2. LLnmSDVVsLHvPenpsTknMmG |
Chain | Residue | Details |
A | LEU200-GLY222 |
site_id | PS00671 |
Number of Residues | 17 |
Details | D_2_HYDROXYACID_DH_3 D-isomer specific 2-hydroxyacid dehydrogenases signature 3. MKpGsLLINaSRGtVVD |
Chain | Residue | Details |
A | MET229-ASP245 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 8 |
Details | ACT_SITE: |
Chain | Residue | Details |
A | ARG240 | |
A | GLU269 | |
B | ARG240 | |
B | GLU269 | |
C | ARG240 | |
C | GLU269 | |
D | ARG240 | |
D | GLU269 |
site_id | SWS_FT_FI2 |
Number of Residues | 4 |
Details | ACT_SITE: Proton donor |
Chain | Residue | Details |
A | HIS292 | |
B | HIS292 | |
C | HIS292 | |
D | HIS292 |
site_id | SWS_FT_FI3 |
Number of Residues | 20 |
Details | BINDING: BINDING => ECO:0000269|PubMed:7719856 |
Chain | Residue | Details |
A | HIS161 | |
B | HIS292 | |
C | HIS161 | |
C | ASP181 | |
C | ALA238 | |
C | ASP264 | |
C | HIS292 | |
D | HIS161 | |
D | ASP181 | |
D | ALA238 | |
D | ASP264 | |
A | ASP181 | |
D | HIS292 | |
A | ALA238 | |
A | ASP264 | |
A | HIS292 | |
B | HIS161 | |
B | ASP181 | |
B | ALA238 | |
B | ASP264 |
Catalytic Information from CSA
site_id | MCSA1 |
Number of Residues | 2 |
Details | M-CSA 785 |
Chain | Residue | Details |
A | GLU269 | electrostatic stabiliser |
A | HIS292 | proton acceptor, proton donor |
site_id | MCSA2 |
Number of Residues | 2 |
Details | M-CSA 785 |
Chain | Residue | Details |
B | GLU269 | electrostatic stabiliser |
B | HIS292 | proton acceptor, proton donor |
site_id | MCSA3 |
Number of Residues | 2 |
Details | M-CSA 785 |
Chain | Residue | Details |
C | GLU269 | electrostatic stabiliser |
C | HIS292 | proton acceptor, proton donor |
site_id | MCSA4 |
Number of Residues | 2 |
Details | M-CSA 785 |
Chain | Residue | Details |
D | GLU269 | electrostatic stabiliser |
D | HIS292 | proton acceptor, proton donor |