Structure of PDB 8vdt Chain A Binding Site BS02

Receptor Information
>8vdt Chain A (length=635) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LDPSGYNPAKNNYHPVEDACWKPGQKVPYLAVARTFEKIEEVSARLRMVE
TLSNLLRSVVALSPPDLLPVLYLSLNHLGPPQQGLALGVGDGVLLKAVAQ
ATGRQLESVRAEAAEKGDVGLVAENMLPPPPLTASGVFSKFRDIARLTGS
ASTAKKIDIIKGLFVACRHSEARFIARSLSGRLRLGLAEQSVLAALSQAV
SLTPPGQEFPPAMVDAGKGKTAEARKTWLEEQGMILKQTFCEVPDLDRII
PVLLEHGLERLPEHCKLSPGIPLKPMLAHPTRGISEVLKREAAFTCEYKY
DGQRAQIHALEGGEVKIFSRNQADNTGKYPDIISRIPKIKLPSVTSFILD
TEAVAWDREKKQIQPFQVLTTRKRKEVDASEIQVQVCLYAFDLIYLNGES
LVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSC
EGLMVKTLDVDATYEIAKRNWLKLKKDYLDGVGDTLDLVVIGAYLGRGKR
AGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPR
PYVRIDGAVIPDHWLDPSAVWEVKCADLSLSPIYPAARGLVDSDKGISLR
FPRFIRVREDKQPEQATTSAQVACLYRKQSQIQNQ
Ligand information
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8vdt Structures of LIG1 provide a mechanistic basis for understanding a lack of sugar discrimination against a ribonucleotide at the 3'-end of nick DNA.
Resolution2.78 Å
Binding residue
(original residue number in PDB)		R305 T415 G416 A418 T420 R451 G453 A455 Q457 S458 Q636 T639 R641 K642 R643 R768 G769 K770 G776 C794 K795 G797 S850 S852 P853 Y855 S869 L870
Binding residue
(residue number reindexed from 1)		R45 T148 G149 A151 T153 R184 G186 A188 Q190 S191 Q367 T370 R372 K373 R374 R497 G498 K499 G505 C523 K524 G526 S579 S581 P582 Y584 S598 L599
Enzymatic activity
Enzyme Commision number 6.5.1.1: DNA ligase (ATP).
External links
PDB RCSB:8vdt, PDBe:8vdt, PDBj:8vdt
PDBsum8vdt
PubMed38522520
UniProtP18858|DNLI1_HUMAN DNA ligase 1 (Gene Name=LIG1)

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