Structure of PDB 6p0b Chain A Binding Site BS03

Receptor Information

>6p0b Chain A (length=642) Species: 9606 (Homo sapiens)

SNDPSGYNPAKNNYHPVEDACWKPGQKVPYLAVARTFEKIEEVSARLRMV
ETLSNLLRSVVALSPPDLLPVLYLSLNHLGPPQQGLALGVGDGVLLKAVA
QATGRQLESVRAEAAEKGDVGLVAENSRSTQRLMLPPPPLTASGVFSKFR
DIARLTGSASTAKKIDIIKGLFVACRHSEARFIARSLSGRLRLGLAEQSV
LAALSQAVSLTPPGQEFPPAMVDAGKGKTAEARKTWLEEQGMILKQTFCE
VPDLDRIIPVLLEHGLERLPEHCKLSPGIPLKPMLAHPTRGISEVLKRFE
EAAFTCEYKYDGQRAQIHALEGGEVKIFSRNQADNTGKYPDIISRIPKIK
LPSVTSFILDTEAVAWDREKKQIQPFQVLTTRKRKEVDASEIQVQVCLYA
FDLIYLNGESLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAE
FLEQSVKDSCEGLMVKTLDVDATYEIAKRSHNWLKLKKDYLDGVGDTLDL
VVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHH
QSLKALVLPSPRPYVRIDGAVIPDHWLDPSAVWEVKCADLSLSPIYPAAR
GLVDSDKGISLRFPRFIRVREDKQPEQATTSAQVACLYRKQS

Ligand information

>6p0b Chain D (length=18)

gtccgacgacgcatcagc

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6p0b Two-tiered enforcement of high-fidelity DNA ligation.
• Resolution: 2.203 Å
• Binding residue (original residue number in PDB): R305 T415 G416 S417 A418 T420 R451 G453 A455 Q457 S458 H546 Q636 T639 T640 R641 R643 K644 R738 R768 K770 G776 K795 G797 S850 L851 S852 P853 Y855 S869 L870 F872
• Binding residue (residue number reindexed from 1): R46 T156 G157 S158 A159 T161 R192 G194 A196 Q198 S199 H287 Q377 T380 T381 R382 R384 K385 R479 R509 K511 G517 K536 G538 S591 L592 S593 P594 Y596 S610 L611 F613

Enzymatic activity

• Enzyme Commision number: 6.5.1.1: DNA ligase (ATP).

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003909 DNA ligase activity
• GO:0003910 DNA ligase (ATP) activity
• GO:0005524 ATP binding

Biological Process

• GO:0006281 DNA repair
• GO:0006310 DNA recombination
• GO:0071897 DNA biosynthetic process

External links

• PDB: RCSB:6p0b, PDBe:6p0b, PDBj:6p0b
• PDBsum: 6p0b
• PubMed: 31780661
• UniProt: P18858|DNLI1_HUMAN DNA ligase 1 (Gene Name=LIG1)