1RFI
Crystal structure of human Tyrosyl-DNA Phosphodiesterase complexed with vanadate, pentapeptide KLNYK, and tetranucleotide AGTC
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | D, F | 5'-D(*AP*GP*TP*C)-3' | polymer | 4 | 1190.8 | 2 | |||
2 | A, B | Tyrosyl-DNA phosphodiesterase 1 | polymer | 485 | 54731.2 | 2 | UniProt (Q9NUW8) Pfam (PF06087) In PDB | Homo sapiens (human) | Tyr-DNA phosphodiesterase 1, TDP1 |
3 | C, E | Topoisomerase I-Derived Peptide | polymer | 5 | 666.8 | 2 | |||
4 | A, B | VANADATE ION | non-polymer | 114.9 | 2 | Chemie (VO4) | |||
5 | A | SPERMINE | non-polymer | 202.3 | 1 | Chemie (SPM) | |||
6 | water | water | 18.0 | 243 | Chemie (HOH) |
Sequence modifications
A, B: 149 - 608 (UniProt: Q9NUW8)
PDB | External Database | Details |
---|---|---|
Met 124 | - | cloning artifact |
Gly 125 | - | cloning artifact |
Ser 126 | - | cloning artifact |
Ser 127 | - | cloning artifact |
His 128 | - | cloning artifact |
His 129 | - | cloning artifact |
His 130 | - | cloning artifact |
His 131 | - | cloning artifact |
His 132 | - | cloning artifact |
His 133 | - | cloning artifact |
Ser 134 | - | cloning artifact |
Ser 135 | - | cloning artifact |
Gly 136 | - | cloning artifact |
Leu 137 | - | cloning artifact |
Val 138 | - | cloning artifact |
Pro 139 | - | cloning artifact |
Arg 140 | - | cloning artifact |
Gly 141 | - | cloning artifact |
Ser 142 | - | cloning artifact |
His 143 | - | cloning artifact |
Met 144 | - | cloning artifact |
Leu 145 | - | cloning artifact |
Glu 146 | - | cloning artifact |
Asp 147 | - | cloning artifact |
Pro 148 | - | cloning artifact |
Asn 322 | Asp 322 | engineered mutation |
Thr 328 | Met 328 | engineered mutation |
Leu 548 | Phe 548 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 6 |
Total formula weight | 113177.7 | |
Non-Polymers* | Number of molecules | 3 |
Total formula weight | 432.2 | |
All* | Total formula weight | 113609.9 |