Structure of PDB 1nop Chain A

Receptor sequence
>1nopA (length=425) Species: 9606 (Homo sapiens) [Search protein sequence]
NPFQFYLTRVSGVKPKYNSGALHIKDILSPLFGTLVSSAQFNYCFDVDWL
VKQYPPEFRKKPILLVHGDKREAKAHLHAQAKPYENISLCQAKLDIAFGT
HHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIADGTHK
SGESPTHFKANLISYLTAYNAPSLKEWIDVIHKHDLSETNVYLIGSTPGR
FQGSQKDNWGHFRLKKLLKDHASSMSWPVVGQFSSVGSLGADESKWLCSE
FKESMLTLGVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQNWLHS
YFHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGAL
EKNGTQLMIRSYELGVLFLPSALGLDSFKVKQKFATFPVPYDLPPELYGS
KDRPWIWNIPYVKAPDTHGNMWVPS
3D structure
PDB1nop Crystal structure of a transition state mimic for Tdp1 assembled from vanadate, DNA, and a topoisomerase I-derived peptide
ChainA
Resolution2.3 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.1.4.-
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 dna A Y204 F259 H263 S403 P461 S518 A520 W590 Y43 F98 H102 S238 P286 S343 A345 W407
BS02 peptide A Y204 C205 F206 D230 I285 G458 S459 P461 H493 W590 Y43 C44 F45 D69 I124 G283 S284 P286 H318 W407
BS03 VO4 A H263 K265 N283 H493 K495 N516 H102 K104 N122 H318 K320 N341 BindingDB: IC50=4000nM
Gene Ontology
Molecular Function
GO:0008081 phosphoric diester hydrolase activity
Biological Process
GO:0006281 DNA repair
Cellular Component
GO:0005634 nucleus

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Biological Process
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Cellular Component
External links
PDB RCSB:1nop, PDBe:1nop, PDBj:1nop
PDBsum1nop
PubMed12618186
UniProtQ9NUW8|TYDP1_HUMAN Tyrosyl-DNA phosphodiesterase 1 (Gene Name=TDP1)

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