6W4X
Holocomplex of E. coli class Ia ribonucleotide reductase with GDP and TTP
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0004748 | molecular_function | ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor |
| A | 0005515 | molecular_function | protein binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005829 | cellular_component | cytosol |
| A | 0005971 | cellular_component | ribonucleoside-diphosphate reductase complex |
| A | 0006457 | biological_process | protein folding |
| A | 0009185 | biological_process | ribonucleoside diphosphate metabolic process |
| A | 0009263 | biological_process | deoxyribonucleotide biosynthetic process |
| A | 0009265 | biological_process | 2'-deoxyribonucleotide biosynthetic process |
| A | 0015949 | biological_process | nucleobase-containing small molecule interconversion |
| A | 0016491 | molecular_function | oxidoreductase activity |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0044183 | molecular_function | protein folding chaperone |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0003824 | molecular_function | catalytic activity |
| B | 0004748 | molecular_function | ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor |
| B | 0005515 | molecular_function | protein binding |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005829 | cellular_component | cytosol |
| B | 0005971 | cellular_component | ribonucleoside-diphosphate reductase complex |
| B | 0006457 | biological_process | protein folding |
| B | 0009185 | biological_process | ribonucleoside diphosphate metabolic process |
| B | 0009263 | biological_process | deoxyribonucleotide biosynthetic process |
| B | 0009265 | biological_process | 2'-deoxyribonucleotide biosynthetic process |
| B | 0015949 | biological_process | nucleobase-containing small molecule interconversion |
| B | 0016491 | molecular_function | oxidoreductase activity |
| B | 0042802 | molecular_function | identical protein binding |
| B | 0044183 | molecular_function | protein folding chaperone |
| C | 0004748 | molecular_function | ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor |
| C | 0005506 | molecular_function | iron ion binding |
| C | 0005515 | molecular_function | protein binding |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0005829 | cellular_component | cytosol |
| C | 0005971 | cellular_component | ribonucleoside-diphosphate reductase complex |
| C | 0009185 | biological_process | ribonucleoside diphosphate metabolic process |
| C | 0009263 | biological_process | deoxyribonucleotide biosynthetic process |
| C | 0009265 | biological_process | 2'-deoxyribonucleotide biosynthetic process |
| C | 0015949 | biological_process | nucleobase-containing small molecule interconversion |
| C | 0016491 | molecular_function | oxidoreductase activity |
| C | 0042802 | molecular_function | identical protein binding |
| C | 0046872 | molecular_function | metal ion binding |
| D | 0004748 | molecular_function | ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor |
| D | 0005506 | molecular_function | iron ion binding |
| D | 0005515 | molecular_function | protein binding |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0005829 | cellular_component | cytosol |
| D | 0005971 | cellular_component | ribonucleoside-diphosphate reductase complex |
| D | 0009185 | biological_process | ribonucleoside diphosphate metabolic process |
| D | 0009263 | biological_process | deoxyribonucleotide biosynthetic process |
| D | 0009265 | biological_process | 2'-deoxyribonucleotide biosynthetic process |
| D | 0015949 | biological_process | nucleobase-containing small molecule interconversion |
| D | 0016491 | molecular_function | oxidoreductase activity |
| D | 0042802 | molecular_function | identical protein binding |
| D | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 11 |
| Details | binding site for residue TTP A 801 |
| Chain | Residue |
| A | ASP232 |
| B | SER249 |
| B | CYS292 |
| A | SER233 |
| A | LEU234 |
| A | ILE237 |
| A | ARG262 |
| A | ILE268 |
| A | ARG269 |
| A | PHE281 |
| A | MG802 |
| site_id | AC2 |
| Number of Residues | 1 |
| Details | binding site for residue MG A 802 |
| Chain | Residue |
| A | TTP801 |
| site_id | AC3 |
| Number of Residues | 16 |
| Details | binding site for residue GDP B 801 |
| Chain | Residue |
| B | PRO208 |
| B | THR209 |
| B | SER224 |
| B | GLY253 |
| B | ARG298 |
| B | GLY299 |
| B | ALA301 |
| B | ASN437 |
| B | LEU438 |
| B | CYS439 |
| B | GLU441 |
| B | LEU464 |
| B | SER622 |
| B | GLU623 |
| B | THR624 |
| B | SER625 |
| site_id | AC4 |
| Number of Residues | 15 |
| Details | binding site for residue TTP B 802 |
| Chain | Residue |
| A | SER249 |
| A | ARG251 |
| A | CYS292 |
| B | ASP232 |
| B | SER233 |
| B | LEU234 |
| B | ILE237 |
| B | ILE261 |
| B | ARG262 |
| B | ILE268 |
| B | ARG269 |
| B | GLY270 |
| B | HIS275 |
| B | PHE281 |
| B | MG803 |
| site_id | AC5 |
| Number of Residues | 2 |
| Details | binding site for residue MG B 803 |
| Chain | Residue |
| B | ARG262 |
| B | TTP802 |
| site_id | AC6 |
| Number of Residues | 8 |
| Details | binding site for residue FEO C 501 |
| Chain | Residue |
| C | ASP84 |
| C | GLU115 |
| C | HIS118 |
| C | GLU204 |
| C | GLU238 |
| C | HIS241 |
| C | HOH601 |
| C | HOH602 |
| site_id | AC7 |
| Number of Residues | 8 |
| Details | binding site for residue FEO D 501 |
| Chain | Residue |
| D | ASP84 |
| D | GLU115 |
| D | HIS118 |
| D | GLU204 |
| D | GLU238 |
| D | HIS241 |
| D | HOH601 |
| D | HOH602 |
Functional Information from PROSITE/UniProt
| site_id | PS00089 |
| Number of Residues | 23 |
| Details | RIBORED_LARGE Ribonucleotide reductase large subunit signature. WeaLresikthGLRNstlSAlmP |
| Chain | Residue | Details |
| A | TRP599-PRO621 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 180 |
| Details | Domain: {"description":"ATP-cone","evidences":[{"source":"PROSITE-ProRule","id":"PRU00492","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | Active site: {"description":"Proton acceptor"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | Active site: {"description":"Cysteine radical intermediate"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 18 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"9309223","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3R1R","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 18 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"9309223","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4R1R","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 4 |
| Details | Site: {"description":"Important for hydrogen atom transfer"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI7 |
| Number of Residues | 4 |
| Details | Site: {"description":"Important for electron transfer"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI8 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"18723842","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI9 |
| Number of Residues | 2 |
| Details | Active site: {} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI10 |
| Number of Residues | 12 |
| Details | Binding site: {} |
| Chain | Residue | Details |
Catalytic Information from CSA
| site_id | MCSA1 |
| Number of Residues | 2 |
| Details | M-CSA 918 |
| Chain | Residue | Details |
| C | FY3122 | pi-pi interaction, single electron relay |
| C | HIS241 | |
| A | CYS439 | hydrogen radical acceptor, hydrogen radical donor, single electron acceptor |
| A | GLU441 | proton acceptor |
| A | CYS462 | |
| A | TYR730 | pi-pi interaction, single electron relay |
| A | TYR731 | pi-pi interaction, single electron relay |
| site_id | MCSA2 |
| Number of Residues | 2 |
| Details | M-CSA 918 |
| Chain | Residue | Details |
| D | FY3122 | pi-pi interaction, single electron relay |
| D | HIS241 | |
| B | CYS439 | hydrogen radical acceptor, hydrogen radical donor, single electron acceptor |
| B | GLU441 | proton acceptor |
| B | CYS462 | |
| B | TYR730 | pi-pi interaction, single electron relay |
| B | TYR731 | pi-pi interaction, single electron relay |
