5K2Z
PDX1.3-adduct (Arabidopsis)
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005515 | molecular_function | protein binding |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0005886 | cellular_component | plasma membrane |
| A | 0006520 | biological_process | amino acid metabolic process |
| A | 0006979 | biological_process | response to oxidative stress |
| A | 0006982 | biological_process | response to lipid hydroperoxide |
| A | 0009651 | biological_process | response to salt stress |
| A | 0010224 | biological_process | response to UV-B |
| A | 0010335 | biological_process | response to non-ionic osmotic stress |
| A | 0012505 | cellular_component | endomembrane system |
| A | 0015994 | biological_process | chlorophyll metabolic process |
| A | 0016829 | molecular_function | lyase activity |
| A | 0036381 | molecular_function | pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity |
| A | 0042538 | biological_process | hyperosmotic salinity response |
| A | 0042803 | molecular_function | protein homodimerization activity |
| A | 0042819 | biological_process | vitamin B6 biosynthetic process |
| A | 0042823 | biological_process | pyridoxal phosphate biosynthetic process |
| A | 0046982 | molecular_function | protein heterodimerization activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0005886 | cellular_component | plasma membrane |
| B | 0006520 | biological_process | amino acid metabolic process |
| B | 0006979 | biological_process | response to oxidative stress |
| B | 0006982 | biological_process | response to lipid hydroperoxide |
| B | 0009651 | biological_process | response to salt stress |
| B | 0010224 | biological_process | response to UV-B |
| B | 0010335 | biological_process | response to non-ionic osmotic stress |
| B | 0012505 | cellular_component | endomembrane system |
| B | 0015994 | biological_process | chlorophyll metabolic process |
| B | 0016829 | molecular_function | lyase activity |
| B | 0036381 | molecular_function | pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity |
| B | 0042538 | biological_process | hyperosmotic salinity response |
| B | 0042803 | molecular_function | protein homodimerization activity |
| B | 0042819 | biological_process | vitamin B6 biosynthetic process |
| B | 0042823 | biological_process | pyridoxal phosphate biosynthetic process |
| B | 0046982 | molecular_function | protein heterodimerization activity |
| C | 0005515 | molecular_function | protein binding |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0005829 | cellular_component | cytosol |
| C | 0005886 | cellular_component | plasma membrane |
| C | 0006520 | biological_process | amino acid metabolic process |
| C | 0006979 | biological_process | response to oxidative stress |
| C | 0006982 | biological_process | response to lipid hydroperoxide |
| C | 0009651 | biological_process | response to salt stress |
| C | 0010224 | biological_process | response to UV-B |
| C | 0010335 | biological_process | response to non-ionic osmotic stress |
| C | 0012505 | cellular_component | endomembrane system |
| C | 0015994 | biological_process | chlorophyll metabolic process |
| C | 0016829 | molecular_function | lyase activity |
| C | 0036381 | molecular_function | pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity |
| C | 0042538 | biological_process | hyperosmotic salinity response |
| C | 0042803 | molecular_function | protein homodimerization activity |
| C | 0042819 | biological_process | vitamin B6 biosynthetic process |
| C | 0042823 | biological_process | pyridoxal phosphate biosynthetic process |
| C | 0046982 | molecular_function | protein heterodimerization activity |
| D | 0005515 | molecular_function | protein binding |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0005829 | cellular_component | cytosol |
| D | 0005886 | cellular_component | plasma membrane |
| D | 0006520 | biological_process | amino acid metabolic process |
| D | 0006979 | biological_process | response to oxidative stress |
| D | 0006982 | biological_process | response to lipid hydroperoxide |
| D | 0009651 | biological_process | response to salt stress |
| D | 0010224 | biological_process | response to UV-B |
| D | 0010335 | biological_process | response to non-ionic osmotic stress |
| D | 0012505 | cellular_component | endomembrane system |
| D | 0015994 | biological_process | chlorophyll metabolic process |
| D | 0016829 | molecular_function | lyase activity |
| D | 0036381 | molecular_function | pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity |
| D | 0042538 | biological_process | hyperosmotic salinity response |
| D | 0042803 | molecular_function | protein homodimerization activity |
| D | 0042819 | biological_process | vitamin B6 biosynthetic process |
| D | 0042823 | biological_process | pyridoxal phosphate biosynthetic process |
| D | 0046982 | molecular_function | protein heterodimerization activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 1 |
| Details | binding site for residue CL A 401 |
| Chain | Residue |
| A | ASN295 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | binding site for residue SO4 A 402 |
| Chain | Residue |
| A | HIS131 |
| A | ARG153 |
| A | ARG154 |
| A | HOH558 |
| C | LYS203 |
| site_id | AC3 |
| Number of Residues | 12 |
| Details | binding site for residue SO4 A 403 |
| Chain | Residue |
| A | GLY169 |
| A | GLY230 |
| A | GLY251 |
| A | SER252 |
| A | 6R3404 |
| A | HOH501 |
| A | HOH502 |
| A | HOH547 |
| A | HOH549 |
| A | PRO65 |
| A | LYS165 |
| A | ALA168 |
| site_id | AC4 |
| Number of Residues | 9 |
| Details | binding site for residue 6R3 A 404 |
| Chain | Residue |
| A | ASP40 |
| A | LYS97 |
| A | ASP118 |
| A | SER120 |
| A | VAL122 |
| A | ARG163 |
| A | LYS165 |
| A | PHE249 |
| A | SO4403 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | binding site for residue EDO A 405 |
| Chain | Residue |
| A | GLY144 |
| A | CYS145 |
| A | ARG146 |
| A | GLU150 |
| A | LYS165 |
| site_id | AC6 |
| Number of Residues | 6 |
| Details | binding site for residue EDO A 406 |
| Chain | Residue |
| A | GLN31 |
| A | ARG220 |
| A | LEU221 |
| A | PRO222 |
| A | VAL223 |
| C | MET32 |
| site_id | AC7 |
| Number of Residues | 7 |
| Details | binding site for residue SO4 B 401 |
| Chain | Residue |
| B | HIS131 |
| B | ARG153 |
| B | ARG154 |
| B | HOH527 |
| B | HOH569 |
| D | LYS203 |
| D | HOH559 |
| site_id | AC8 |
| Number of Residues | 12 |
| Details | binding site for residue SO4 B 402 |
| Chain | Residue |
| B | PRO65 |
| B | LYS165 |
| B | ALA168 |
| B | GLY169 |
| B | GLY229 |
| B | GLY230 |
| B | GLY251 |
| B | SER252 |
| B | 6R3403 |
| B | HOH501 |
| B | HOH521 |
| B | HOH542 |
| site_id | AC9 |
| Number of Residues | 6 |
| Details | binding site for residue EDO B 404 |
| Chain | Residue |
| B | GLU121 |
| B | GLY144 |
| B | CYS145 |
| B | ARG146 |
| B | GLU150 |
| B | LYS165 |
| site_id | AD1 |
| Number of Residues | 5 |
| Details | binding site for residue SO4 C 401 |
| Chain | Residue |
| A | LYS203 |
| A | HOH561 |
| C | HIS131 |
| C | ARG153 |
| C | ARG154 |
| site_id | AD2 |
| Number of Residues | 9 |
| Details | binding site for residue SO4 C 402 |
| Chain | Residue |
| C | PRO65 |
| C | LYS165 |
| C | ALA168 |
| C | GLY169 |
| C | GLY230 |
| C | GLY251 |
| C | SER252 |
| C | 6R3403 |
| C | HOH533 |
| site_id | AD3 |
| Number of Residues | 5 |
| Details | binding site for residue EDO C 404 |
| Chain | Residue |
| C | GLU62 |
| C | SER78 |
| C | ASP79 |
| C | MET82 |
| C | HOH539 |
| site_id | AD4 |
| Number of Residues | 1 |
| Details | binding site for residue CL D 401 |
| Chain | Residue |
| D | ASN295 |
| site_id | AD5 |
| Number of Residues | 12 |
| Details | binding site for residue SO4 D 402 |
| Chain | Residue |
| D | PRO65 |
| D | LYS165 |
| D | ALA168 |
| D | GLY169 |
| D | GLY229 |
| D | GLY230 |
| D | GLY251 |
| D | SER252 |
| D | 6R3404 |
| D | HOH501 |
| D | HOH522 |
| D | HOH540 |
| site_id | AD6 |
| Number of Residues | 6 |
| Details | binding site for residue SO4 D 403 |
| Chain | Residue |
| D | ARG154 |
| D | HOH539 |
| B | LYS203 |
| B | HOH555 |
| D | HIS131 |
| D | ARG153 |
| site_id | AD7 |
| Number of Residues | 16 |
| Details | binding site for Di-peptide 6R3 B 403 and LYS B 97 |
| Chain | Residue |
| B | ASP40 |
| B | ALA60 |
| B | LEU61 |
| B | MET77 |
| B | ALA96 |
| B | ALA98 |
| B | LEU109 |
| B | ASP118 |
| B | SER120 |
| B | VAL122 |
| B | LEU123 |
| B | ARG163 |
| B | LYS165 |
| B | PHE249 |
| B | SO4402 |
| B | HOH528 |
| site_id | AD8 |
| Number of Residues | 15 |
| Details | binding site for Di-peptide 6R3 B 403 and LYS B 165 |
| Chain | Residue |
| B | ASP40 |
| B | LYS97 |
| B | ASP118 |
| B | SER120 |
| B | GLU121 |
| B | VAL122 |
| B | CYS145 |
| B | ARG163 |
| B | THR164 |
| B | GLY166 |
| B | HIS179 |
| B | ALA228 |
| B | PHE249 |
| B | SO4402 |
| B | EDO404 |
| site_id | AD9 |
| Number of Residues | 14 |
| Details | binding site for Di-peptide 6R3 C 403 and LYS C 165 |
| Chain | Residue |
| C | ASP40 |
| C | LYS97 |
| C | ASP118 |
| C | SER120 |
| C | GLU121 |
| C | VAL122 |
| C | CYS145 |
| C | ARG163 |
| C | THR164 |
| C | GLY166 |
| C | HIS179 |
| C | ALA228 |
| C | PHE249 |
| C | SO4402 |
| site_id | AE1 |
| Number of Residues | 16 |
| Details | binding site for Di-peptide 6R3 C 403 and LYS C 97 |
| Chain | Residue |
| C | ASP40 |
| C | ALA60 |
| C | LEU61 |
| C | MET77 |
| C | ALA96 |
| C | ALA98 |
| C | LEU109 |
| C | ASP118 |
| C | SER120 |
| C | VAL122 |
| C | LEU123 |
| C | ARG163 |
| C | LYS165 |
| C | PHE249 |
| C | SO4402 |
| C | HOH522 |
| site_id | AE2 |
| Number of Residues | 14 |
| Details | binding site for Di-peptide 6R3 D 404 and LYS D 165 |
| Chain | Residue |
| D | ASP40 |
| D | LYS97 |
| D | ASP118 |
| D | SER120 |
| D | GLU121 |
| D | VAL122 |
| D | CYS145 |
| D | ARG163 |
| D | THR164 |
| D | GLY166 |
| D | HIS179 |
| D | ALA228 |
| D | PHE249 |
| D | SO4402 |
| site_id | AE3 |
| Number of Residues | 16 |
| Details | binding site for Di-peptide 6R3 D 404 and LYS D 97 |
| Chain | Residue |
| D | ASP40 |
| D | ALA60 |
| D | LEU61 |
| D | MET77 |
| D | ALA96 |
| D | ALA98 |
| D | LEU109 |
| D | ASP118 |
| D | SER120 |
| D | VAL122 |
| D | LEU123 |
| D | ARG163 |
| D | LYS165 |
| D | PHE249 |
| D | SO4402 |
| D | HOH530 |
Functional Information from PROSITE/UniProt
| site_id | PS01235 |
| Number of Residues | 19 |
| Details | PDXS_SNZ_1 PdxS/SNZ family signature. LPVVQFAAGGVATPADAAL |
| Chain | Residue | Details |
| A | LEU221-LEU239 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 4 |
| Details | ACT_SITE: Schiff-base intermediate with D-ribose 5-phosphate => ECO:0000250|UniProtKB:O59080 |
| Chain | Residue | Details |
| A | LYS97 | |
| B | LYS97 | |
| C | LYS97 | |
| D | LYS97 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 16 |
| Details | BINDING: BINDING => ECO:0000250|UniProtKB:O59080 |
| Chain | Residue | Details |
| B | ASP40 | |
| B | GLY169 | |
| B | GLY230 | |
| B | GLY251 | |
| C | ASP40 | |
| C | GLY169 | |
| C | GLY230 | |
| C | GLY251 | |
| D | ASP40 | |
| D | GLY169 | |
| D | GLY230 | |
| D | GLY251 | |
| A | ASP40 | |
| A | GLY169 | |
| A | GLY230 | |
| A | GLY251 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000250|UniProtKB:Q03148 |
| Chain | Residue | Details |
| A | ARG181 | |
| B | ARG181 | |
| C | ARG181 | |
| D | ARG181 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 4 |
| Details | MOD_RES: N-acetylmethionine => ECO:0007744|PubMed:22223895 |
| Chain | Residue | Details |
| A | MET1 | |
| B | MET1 | |
| C | MET1 | |
| D | MET1 |
