6VPQ
Crystal structure of the C-terminal domain of DENR
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0001731 | biological_process | formation of translation preinitiation complex |
| A | 0002188 | biological_process | translation reinitiation |
| A | 0003674 | molecular_function | molecular_function |
| A | 0003729 | molecular_function | mRNA binding |
| A | 0003743 | molecular_function | translation initiation factor activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005575 | cellular_component | cellular_component |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0006412 | biological_process | translation |
| A | 0006413 | biological_process | translational initiation |
| A | 0032790 | biological_process | ribosome disassembly |
| A | 0075522 | biological_process | IRES-dependent viral translational initiation |
| B | 0001731 | biological_process | formation of translation preinitiation complex |
| B | 0002188 | biological_process | translation reinitiation |
| B | 0003674 | molecular_function | molecular_function |
| B | 0003729 | molecular_function | mRNA binding |
| B | 0003743 | molecular_function | translation initiation factor activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005575 | cellular_component | cellular_component |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0006412 | biological_process | translation |
| B | 0006413 | biological_process | translational initiation |
| B | 0032790 | biological_process | ribosome disassembly |
| B | 0075522 | biological_process | IRES-dependent viral translational initiation |
| C | 0001731 | biological_process | formation of translation preinitiation complex |
| C | 0002188 | biological_process | translation reinitiation |
| C | 0003674 | molecular_function | molecular_function |
| C | 0003729 | molecular_function | mRNA binding |
| C | 0003743 | molecular_function | translation initiation factor activity |
| C | 0005515 | molecular_function | protein binding |
| C | 0005575 | cellular_component | cellular_component |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0006412 | biological_process | translation |
| C | 0006413 | biological_process | translational initiation |
| C | 0032790 | biological_process | ribosome disassembly |
| C | 0075522 | biological_process | IRES-dependent viral translational initiation |
| D | 0001731 | biological_process | formation of translation preinitiation complex |
| D | 0002188 | biological_process | translation reinitiation |
| D | 0003674 | molecular_function | molecular_function |
| D | 0003729 | molecular_function | mRNA binding |
| D | 0003743 | molecular_function | translation initiation factor activity |
| D | 0005515 | molecular_function | protein binding |
| D | 0005575 | cellular_component | cellular_component |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0006412 | biological_process | translation |
| D | 0006413 | biological_process | translational initiation |
| D | 0032790 | biological_process | ribosome disassembly |
| D | 0075522 | biological_process | IRES-dependent viral translational initiation |
| E | 0001731 | biological_process | formation of translation preinitiation complex |
| E | 0002188 | biological_process | translation reinitiation |
| E | 0003674 | molecular_function | molecular_function |
| E | 0003729 | molecular_function | mRNA binding |
| E | 0003743 | molecular_function | translation initiation factor activity |
| E | 0005515 | molecular_function | protein binding |
| E | 0005575 | cellular_component | cellular_component |
| E | 0005737 | cellular_component | cytoplasm |
| E | 0006412 | biological_process | translation |
| E | 0006413 | biological_process | translational initiation |
| E | 0032790 | biological_process | ribosome disassembly |
| E | 0075522 | biological_process | IRES-dependent viral translational initiation |
| F | 0001731 | biological_process | formation of translation preinitiation complex |
| F | 0002188 | biological_process | translation reinitiation |
| F | 0003674 | molecular_function | molecular_function |
| F | 0003729 | molecular_function | mRNA binding |
| F | 0003743 | molecular_function | translation initiation factor activity |
| F | 0005515 | molecular_function | protein binding |
| F | 0005575 | cellular_component | cellular_component |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0006412 | biological_process | translation |
| F | 0006413 | biological_process | translational initiation |
| F | 0032790 | biological_process | ribosome disassembly |
| F | 0075522 | biological_process | IRES-dependent viral translational initiation |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 6 |
| Details | binding site for residue MG A 201 |
| Chain | Residue |
| A | THR171 |
| A | ASP172 |
| A | HOH308 |
| A | HOH325 |
| A | HOH352 |
| C | LYS119 |
| site_id | AC2 |
| Number of Residues | 2 |
| Details | binding site for residue MG A 202 |
| Chain | Residue |
| A | ASP176 |
| A | GLN179 |
| site_id | AC3 |
| Number of Residues | 5 |
| Details | binding site for residue MG A 203 |
| Chain | Residue |
| A | PGE205 |
| A | HOH346 |
| A | HOH366 |
| A | HOH373 |
| A | GLU191 |
| site_id | AC4 |
| Number of Residues | 8 |
| Details | binding site for residue PGE A 204 |
| Chain | Residue |
| A | ILE120 |
| A | ARG130 |
| A | GLU163 |
| A | ILE165 |
| A | HOH318 |
| A | HOH371 |
| B | ARG130 |
| C | PGE202 |
| site_id | AC5 |
| Number of Residues | 7 |
| Details | binding site for residue PGE A 205 |
| Chain | Residue |
| A | ASP187 |
| A | ASP188 |
| A | ILE190 |
| A | GLU191 |
| A | MG203 |
| A | HOH319 |
| A | HOH346 |
| site_id | AC6 |
| Number of Residues | 7 |
| Details | binding site for residue MG A 206 |
| Chain | Residue |
| A | ASP173 |
| A | HOH304 |
| A | HOH315 |
| A | HOH368 |
| E | HOH336 |
| E | HOH360 |
| E | HOH369 |
| site_id | AC7 |
| Number of Residues | 6 |
| Details | binding site for residue ACT A 207 |
| Chain | Residue |
| A | SER153 |
| A | GLY155 |
| A | HOH309 |
| D | GLU143 |
| D | ARG146 |
| D | HOH342 |
| site_id | AC8 |
| Number of Residues | 6 |
| Details | binding site for residue MG B 201 |
| Chain | Residue |
| B | PRO183 |
| B | GLU184 |
| B | PGE206 |
| C | ALA149 |
| C | SER153 |
| F | LYS126 |
| site_id | AC9 |
| Number of Residues | 5 |
| Details | binding site for residue MG B 202 |
| Chain | Residue |
| B | ASP187 |
| B | ILE190 |
| B | HOH363 |
| E | ASP188 |
| E | HOH303 |
| site_id | AD1 |
| Number of Residues | 3 |
| Details | binding site for residue MG B 203 |
| Chain | Residue |
| B | ALA149 |
| B | GLN150 |
| B | SER153 |
| site_id | AD2 |
| Number of Residues | 5 |
| Details | binding site for residue MG B 204 |
| Chain | Residue |
| B | LYS142 |
| B | GLN145 |
| B | HOH354 |
| B | HOH356 |
| B | HOH376 |
| site_id | AD3 |
| Number of Residues | 4 |
| Details | binding site for residue MG B 205 |
| Chain | Residue |
| B | ASP176 |
| B | GLN179 |
| B | HOH319 |
| B | HOH352 |
| site_id | AD4 |
| Number of Residues | 9 |
| Details | binding site for residue PGE B 206 |
| Chain | Residue |
| B | ILE139 |
| B | ASP140 |
| B | GLU143 |
| B | LYS181 |
| B | TRP182 |
| B | MG201 |
| C | SER153 |
| E | ARG122 |
| F | LYS126 |
| site_id | AD5 |
| Number of Residues | 8 |
| Details | binding site for residue PGE B 207 |
| Chain | Residue |
| B | PRO121 |
| B | LYS124 |
| B | GLY155 |
| B | ALA156 |
| B | SER157 |
| B | GLN167 |
| B | HOH341 |
| C | TYR127 |
| site_id | AD6 |
| Number of Residues | 2 |
| Details | binding site for residue CA B 208 |
| Chain | Residue |
| B | GLU180 |
| C | HOH350 |
| site_id | AD7 |
| Number of Residues | 3 |
| Details | binding site for residue MG C 201 |
| Chain | Residue |
| C | ASP187 |
| D | HOH317 |
| E | HOH363 |
| site_id | AD8 |
| Number of Residues | 8 |
| Details | binding site for residue PGE C 202 |
| Chain | Residue |
| A | ARG122 |
| A | ALA123 |
| A | PGE204 |
| B | ARG122 |
| C | PRO121 |
| C | ARG122 |
| C | ALA123 |
| C | HOH301 |
| site_id | AD9 |
| Number of Residues | 7 |
| Details | binding site for residue PGE C 203 |
| Chain | Residue |
| F | TYR127 |
| F | HOH323 |
| C | LYS151 |
| C | PHE152 |
| C | HOH310 |
| C | HOH325 |
| C | HOH377 |
| site_id | AE1 |
| Number of Residues | 6 |
| Details | binding site for residue PGE C 204 |
| Chain | Residue |
| B | LYS119 |
| C | THR171 |
| C | ASP172 |
| C | GLU195 |
| C | HOH313 |
| C | HOH317 |
| site_id | AE2 |
| Number of Residues | 6 |
| Details | binding site for residue MG C 205 |
| Chain | Residue |
| C | ASP187 |
| C | ILE190 |
| C | HOH358 |
| C | HOH366 |
| C | HOH368 |
| C | HOH369 |
| site_id | AE3 |
| Number of Residues | 5 |
| Details | binding site for residue CA C 206 |
| Chain | Residue |
| A | HOH378 |
| C | GLY160 |
| C | GLU163 |
| C | HOH340 |
| C | HOH359 |
| site_id | AE4 |
| Number of Residues | 4 |
| Details | binding site for residue MG D 201 |
| Chain | Residue |
| B | HOH349 |
| D | GLU138 |
| D | HOH314 |
| D | HOH365 |
| site_id | AE5 |
| Number of Residues | 17 |
| Details | binding site for residue PGE D 202 |
| Chain | Residue |
| D | ILE120 |
| D | PRO121 |
| D | ARG122 |
| D | ALA123 |
| D | HOH301 |
| D | HOH304 |
| D | HOH311 |
| D | HOH315 |
| D | HOH337 |
| D | HOH348 |
| D | HOH350 |
| E | PRO121 |
| E | ALA123 |
| F | ILE120 |
| F | PRO121 |
| F | ARG122 |
| F | ALA123 |
| site_id | AE6 |
| Number of Residues | 5 |
| Details | binding site for residue MG D 203 |
| Chain | Residue |
| C | HOH316 |
| C | HOH349 |
| D | HOH334 |
| D | HOH375 |
| E | HOH357 |
| site_id | AE7 |
| Number of Residues | 4 |
| Details | binding site for residue CA D 204 |
| Chain | Residue |
| D | HOH305 |
| D | HOH330 |
| F | ASP188 |
| F | HOH315 |
| site_id | AE8 |
| Number of Residues | 3 |
| Details | binding site for residue MG E 201 |
| Chain | Residue |
| E | ASP187 |
| E | ILE190 |
| E | HOH365 |
| site_id | AE9 |
| Number of Residues | 2 |
| Details | binding site for residue MG E 202 |
| Chain | Residue |
| E | ASP176 |
| E | GLN179 |
| site_id | AF1 |
| Number of Residues | 3 |
| Details | binding site for residue MG E 203 |
| Chain | Residue |
| D | HOH372 |
| E | GLU195 |
| E | HOH352 |
| site_id | AF2 |
| Number of Residues | 4 |
| Details | binding site for residue PGE E 204 |
| Chain | Residue |
| D | HOH325 |
| E | CYS132 |
| E | GLY133 |
| E | ASP162 |
| site_id | AF3 |
| Number of Residues | 7 |
| Details | binding site for residue MG F 201 |
| Chain | Residue |
| D | ASP176 |
| D | HOH356 |
| F | GLU191 |
| F | MG203 |
| F | HOH305 |
| F | HOH334 |
| F | HOH366 |
| site_id | AF4 |
| Number of Residues | 4 |
| Details | binding site for residue MG F 202 |
| Chain | Residue |
| B | HOH364 |
| D | LYS126 |
| F | ARG122 |
| F | LYS124 |
| site_id | AF5 |
| Number of Residues | 7 |
| Details | binding site for residue MG F 203 |
| Chain | Residue |
| F | ASP187 |
| F | ILE190 |
| F | GLU191 |
| F | MG201 |
| F | HOH305 |
| F | HOH324 |
| F | HOH375 |
| site_id | AF6 |
| Number of Residues | 6 |
| Details | binding site for residue MG F 204 |
| Chain | Residue |
| D | ASP176 |
| D | GLU180 |
| F | ASP188 |
| F | GLU191 |
| F | HOH312 |
| F | HOH362 |
| site_id | AF7 |
| Number of Residues | 4 |
| Details | binding site for residue MG F 205 |
| Chain | Residue |
| C | ASP172 |
| C | ASP173 |
| C | HOH320 |
| F | GLU195 |
| site_id | AF8 |
| Number of Residues | 8 |
| Details | binding site for residue MG F 206 |
| Chain | Residue |
| C | ASP173 |
| C | HOH306 |
| C | HOH348 |
| F | THR171 |
| F | ASP172 |
| F | GLU195 |
| F | MG207 |
| F | HOH301 |
| site_id | AF9 |
| Number of Residues | 5 |
| Details | binding site for residue MG F 207 |
| Chain | Residue |
| F | THR171 |
| F | ASP192 |
| F | GLU195 |
| F | MG206 |
| F | HOH301 |
| site_id | AG1 |
| Number of Residues | 4 |
| Details | binding site for residue PGE F 208 |
| Chain | Residue |
| F | ASP187 |
| F | ACT211 |
| F | HOH309 |
| F | HOH353 |
| site_id | AG2 |
| Number of Residues | 7 |
| Details | binding site for residue PGE F 209 |
| Chain | Residue |
| F | PHE137 |
| F | GLU138 |
| F | ILE139 |
| F | TRP182 |
| F | GLU184 |
| F | HOH304 |
| F | HOH340 |
| site_id | AG3 |
| Number of Residues | 7 |
| Details | binding site for residue ACT F 210 |
| Chain | Residue |
| F | LYS124 |
| F | LYS125 |
| F | CSO154 |
| F | GLY155 |
| F | GLN167 |
| F | HOH310 |
| F | HOH379 |
| site_id | AG4 |
| Number of Residues | 6 |
| Details | binding site for residue ACT F 211 |
| Chain | Residue |
| F | GLN179 |
| F | ASP187 |
| F | PGE208 |
| F | HOH308 |
| F | HOH321 |
| F | HOH353 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 6 |
| Details | MOD_RES: N-acetylalanine => ECO:0007744|PubMed:19413330, ECO:0007744|PubMed:22223895, ECO:0007744|PubMed:22814378 |
| Chain | Residue | Details |
| A | ALA2 | |
| B | ALA2 | |
| C | ALA2 | |
| D | ALA2 | |
| E | ALA2 | |
| F | ALA2 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 6 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| A | SER20 | |
| B | SER20 | |
| C | SER20 | |
| D | SER20 | |
| E | SER20 | |
| F | SER20 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 6 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:21406692, ECO:0007744|PubMed:23186163, ECO:0007744|PubMed:24275569 |
| Chain | Residue | Details |
| A | SER73 | |
| B | SER73 | |
| C | SER73 | |
| D | SER73 | |
| E | SER73 | |
| F | SER73 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 6 |
| Details | MOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| A | THR86 | |
| B | THR86 | |
| C | THR86 | |
| D | THR86 | |
| E | THR86 | |
| F | THR86 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 6 |
| Details | MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:Q9CQJ6 |
| Chain | Residue | Details |
| A | SER189 | |
| B | SER189 | |
| C | SER189 | |
| D | SER189 | |
| E | SER189 | |
| F | SER189 |
