Structure of PDB 5gz5 Chain A

Receptor sequence
>5gz5A (length=777) Species: 8656 (Naja atra) [Search protein sequence]
YQDICVLPTQSWSCNKLRCGEKRMANVLCSCSEDCLTKKDCCTDYKSICK
RETSWLKDQCASQCPEGFDQSPLILFSMDGFRAEYLETWDTLMPNINKLK
TCGTHAKYMRAVYPTKTFVNHYTIVTGLYAETHGIIDNNMYDVKLNQNFS
LSGSNMRNAAWWGGQPIWHTASYQGLKAATYFWPGSEVKINGSYPTIYKV
YNKSTPFEARVMEVLKWLDLPKAKRPDFSTLYIEEPDTTGHKFGPVSGQV
IKSLQMADRTLGMLMEGLKQRNLHNCVNLILLADHGMEAISCNRLEYMTD
YFNTVDFFMYEGAAPRIRSKNVPKDFYTFDSEAIVKKLTCRKPKQHFKAY
LAKDLPKRLHFANNIRIDKVNLMVDRQWLAVRNKKYKYCSGGTHGYDNEF
KSMEAIFLAHGPGFKEKTEVTSFENIEVYNLMCDLLKLKPAPNNGTHGSL
NHLLKNPFYNPSPAKEQSPPLYCLFGPVPSPDVSGCKCSSITDLEAVNQR
LNLIDQAKMQSEADNLPYGRPHVLQHSKYCLLHQTKYISAYSQDILMPLW
NSYTISKSLPSASDCLRLDVRIPTVQSQTCSNYQPDLAITPGFLYPPDFS
SSGPEQYDALITSNIVPMYKEFARLWNYFHSTLLPKYATERNGLNVISGP
IFDYNYDGHFDPYDTIDQYVNNTKIPIPTHYFVVLTSCENSTKTPLNCPP
GSLKVLSFILPHRPDNSESCADKSPDNLWVEERMQTHTARVRDVELLTGL
DFYSALKQPLSETLRLKTFLPIFINSV
3D structure
PDB5gz5 Crystal structure of snake venom phosphodiesterase (PDE) from Taiwan cobra (Naja atra atra) in complex with AMP
ChainA
Resolution2.093 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.6.1.-
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 ZN A D305 H309 H462 D237 H241 H394
BS02 ZN A D147 T185 D352 H353 D79 T117 D284 H285
BS03 CA A D728 N730 D732 H734 D736 D653 N655 D657 H659 D661
BS04 AMP A T185 F186 Y269 K271 Y300 D305 H309 H462 T117 F118 Y201 K203 Y232 D237 H241 H394
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0016787 hydrolase activity
GO:0043262 ADP phosphatase activity
GO:0046872 metal ion binding
GO:0047429 nucleoside triphosphate diphosphatase activity
GO:0090729 toxin activity
Biological Process
GO:0009143 nucleoside triphosphate catabolic process
GO:0035821 modulation of process of another organism
Cellular Component
GO:0005576 extracellular region

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5gz5, PDBe:5gz5, PDBj:5gz5
PDBsum5gz5
PubMed
UniProtA0A2D0TC04|PDE_NAJAT Venom phosphodiesterase

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