6GDR
DNA binding with a minimal scaffold: Structure-function analysis of Lig E DNA ligases
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (B) | DNA (5'-D(*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*T)-3') | polymer | 21 | 6494.2 | 1 | Alteromonas mediterranea | ||
| 2 | B (C) | DNA | polymer | 10 | 3005.0 | 1 | Alteromonas mediterranea | ||
| 3 | C (D) | DNA (5'-D(P*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*A)-3') | polymer | 11 | 3342.2 | 1 | Alteromonas mediterranea | ||
| 4 | D (A) | DNA ligase | polymer | 297 | 33017.7 | 1 | UniProt (A0A1J0SCU0) | Alteromonas mediterranea | |
| 5 | E, F (B) | PHOSPHATE ION | non-polymer | 95.0 | 2 | Chemie (PO4) PubChem (1061) | |||
| 6 | G (D) | ADENOSINE MONOPHOSPHATE | non-polymer | 347.2 | 1 | Chemie (AMP) PubChem (16397049) PubChem (16760266) PubChem (224) PubChem (40467049) PubChem (40469468) PubChem (34768) PubChem (44348067) PubChem (83862) PubChem (45358029) PubChem (46874558) PubChem (40459109) PubChem (57358045) PubChem (57879893) PubChem (57879902) PubChem (46875232) PubChem (446048) PubChem (515384) PubChem (638042) PubChem (177678969) PubChem (6083) PubChem (1549371) PubChem (5316444) PubChem (92144436) PubChem (5742864) PubChem (122197642) PubChem (12358354) PubChem (12163610) PubChem (12358355) PubChem (162290139) PubChem (162946266) PubChem (171699505) | |||
| 7 | H, I, J, K (B, C, D, A) | water | water | 18.0 | 69 | Chemie (HOH) |
Sequence modifications
A: 1 - 297 (UniProt: A0A1J0SCU0)
| PDB | External Database | Details |
|---|---|---|
| Gly 1 | Ala 21 | conflict |
| His 5 | Leu 25 | conflict |
| Gly 18 | Ser 38 | conflict |
| Asp 56 | Ala 76 | conflict |
| Gln 98 | His 118 | conflict |
| Asp 112 | Gly 132 | conflict |
| Val 128 | Ile 148 | conflict |
| Ile 208 | Leu 228 | conflict |
| Phe 224 | Leu 244 | conflict |
| Ala 225 | Pro 245 | conflict |
| Arg 259 | Gln 279 | conflict |
| Val 264 | Ile 284 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 4 |
| Total formula weight | 45859.0 | |
| Non-Polymers* | Number of molecules | 3 |
| Total formula weight | 537.2 | |
| All* | Total formula weight | 46396.2 |
