3G2D
Complex of Mth0212 and a 4 bp dsDNA with 3'-overhang
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003677 | molecular_function | DNA binding |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0003906 | molecular_function | DNA-(apurinic or apyrimidinic site) endonuclease activity |
| A | 0004518 | molecular_function | nuclease activity |
| A | 0004519 | molecular_function | endonuclease activity |
| A | 0006281 | biological_process | DNA repair |
| A | 0006284 | biological_process | base-excision repair |
| A | 0006974 | biological_process | DNA damage response |
| A | 0008081 | molecular_function | phosphoric diester hydrolase activity |
| A | 0008311 | molecular_function | double-stranded DNA 3'-5' DNA exonuclease activity |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0016829 | molecular_function | lyase activity |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0140078 | molecular_function | class I DNA-(apurinic or apyrimidinic site) endonuclease activity |
| B | 0003677 | molecular_function | DNA binding |
| B | 0003824 | molecular_function | catalytic activity |
| B | 0003906 | molecular_function | DNA-(apurinic or apyrimidinic site) endonuclease activity |
| B | 0004518 | molecular_function | nuclease activity |
| B | 0004519 | molecular_function | endonuclease activity |
| B | 0006281 | biological_process | DNA repair |
| B | 0006284 | biological_process | base-excision repair |
| B | 0006974 | biological_process | DNA damage response |
| B | 0008081 | molecular_function | phosphoric diester hydrolase activity |
| B | 0008311 | molecular_function | double-stranded DNA 3'-5' DNA exonuclease activity |
| B | 0016787 | molecular_function | hydrolase activity |
| B | 0016829 | molecular_function | lyase activity |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0140078 | molecular_function | class I DNA-(apurinic or apyrimidinic site) endonuclease activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE PO4 A 266 |
| Chain | Residue |
| A | ARG209 |
| A | THR210 |
| A | HOH315 |
| A | HOH407 |
| K | DC1 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE PO4 A 267 |
| Chain | Residue |
| A | HOH325 |
| A | GLU228 |
| A | GLU229 |
| A | LYS231 |
| A | GLY232 |
| site_id | AC3 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE PO4 A 268 |
| Chain | Residue |
| A | LYS116 |
| A | ASN169 |
| A | VAL170 |
| A | SER171 |
| A | HOH390 |
| B | ASN169 |
| site_id | AC4 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE PG4 A 269 |
| Chain | Residue |
| A | ASN12 |
| A | ASN114 |
| A | GLY115 |
| A | LYS116 |
| A | LYS125 |
| A | ASN153 |
| A | SER171 |
| A | GLY172 |
| A | GLU177 |
| A | TRP205 |
| A | LEU221 |
| A | ASP247 |
| A | HOH277 |
| G | DG7 |
| site_id | AC5 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE PG4 A 270 |
| Chain | Residue |
| A | TRP206 |
| A | SER207 |
| A | TYR208 |
| A | ARG211 |
| A | ARG213 |
| A | MET244 |
| A | SER246 |
| A | ASP247 |
| A | GOL274 |
| K | DC1 |
| K | DC2 |
| site_id | AC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE GOL A 271 |
| Chain | Residue |
| A | HIS156 |
| A | ARG157 |
| A | ILE185 |
| A | ASP191 |
| A | HOH355 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PG4 A 272 |
| Chain | Residue |
| A | ARG51 |
| A | HIS52 |
| A | VAL53 |
| A | TYR56 |
| site_id | AC8 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE GOL A 273 |
| Chain | Residue |
| A | GLU89 |
| A | ARG90 |
| A | THR93 |
| site_id | AC9 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE GOL A 274 |
| Chain | Residue |
| A | LYS20 |
| A | TYR208 |
| A | MET244 |
| A | GLY245 |
| A | SER246 |
| A | PG4270 |
| A | HOH312 |
| site_id | BC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE GOL A 275 |
| Chain | Residue |
| A | ARG213 |
| A | SER241 |
| A | ASP242 |
| A | HOH297 |
| site_id | BC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PG4 B 266 |
| Chain | Residue |
| B | LYS183 |
| B | GLU186 |
| B | ASN187 |
| B | HOH281 |
| site_id | BC3 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE GOL B 267 |
| Chain | Residue |
| B | ARG48 |
| B | ARG51 |
| site_id | BC4 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE GOL K 11 |
| Chain | Residue |
| K | HOH83 |
Functional Information from PROSITE/UniProt
| site_id | PS00726 |
| Number of Residues | 10 |
| Details | AP_NUCLEASE_F1_1 AP endonucleases family 1 signature 1. PDILCLQEIK |
| Chain | Residue | Details |
| A | PRO31-LYS40 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | Active site: {"description":"Proton donor/acceptor","evidences":[{"source":"PubMed","id":"20434457","evidenceCode":"ECO:0000305"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"20434457","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"DEC-2012","submissionDatabase":"PDB data bank","title":"Crystal structure of DNA uridine endonuclease Mth212.","authors":["Tabata N.","Shida T.","Arai R."]}}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 6 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"20434457","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
