Structure of PDB 8ugb Chain B Binding Site BS01

Receptor Information
>8ugb Chain B (length=811) Species: 9913 (Bos taurus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QVHRFLDQNPGFADQYFGRKLSPEDVANACEDGCPEGCTSFRELCQVEES
AALFELVQDMQENVNMERVVFKILRRLCSILHADRCSLFMYRQRNGVAEL
ATRLFSVQPDSVLEDCLVPPDSEIVFPLDIGVVGHVAQTKKMVNVQDVME
CPHFSSFADELTDYVTRNILATPIMNGKDVVAVIMAVNKLDGPCFTSEDE
DVFLKYLNFGTLNLKIYHLSYLHNCETRRGQVLLWSANKVFEELTDIERQ
FHKAFYTVRAYLNCDRYSVGLLDMTKEKEFFDVWPVLMGEAQAYSGPRTP
DGREILFYKVIDYILHGKEDIKVIPSPPADHWALASGLPTYVAESGFICN
IMNAPADEMFNFQEGPLDDSGWIVKNVLSMPIVNKKEEIVGVATFYNRKD
GKPFDEQDEVLMESLTQFLGWSVLNTDTYDKMNKLENRKDIAQDMVLYHV
RCDREEIQLILPTRERLGKEPADCEEDELGKILKEVLPGPAKFDIYEFHF
SDLECTELELVKCGIQMYYELGVVRKFQIPQEVLVRFLFSVSKGYRRITY
HNWRHGFNVAQTMFTLLMTGKLKSYYTDLEAFAMVTAGLCHDIDHRGTNN
LYQMKSQNPLAKLHGSSILERHHLEFGKFLLSEETLNIYQNLNRRQHEHV
IHLMDIAIIATDLALYFKKRTMFQKIVDESKNYEDRKSWVEYLSLETTRK
EIVMAMMMTACDLSAITKPWEVQSKVALLVAAEFWEQGDLERTVLDQQPI
PMMDRNKAAELPKLQVGFIDFVCTFVYKEFSRFHEEILPMFDRLQNNRKE
WKALADEYEAK
Ligand information
>8ugb Chain C (length=24) Species: 9913 (Bos taurus) [Search peptide sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
RSATRVMGGPVTPRKGPPKFKQRQ
Receptor-Ligand Complex Structure
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PDB8ugb Probing the mechanism by which the retinal G protein transducin activates its biological effector PDE6.
Resolution3.0 Å
Binding residue
(original residue number in PDB)		N101 F111 V124 D127 S128 V131 F132 I136 F163 L167 Y347 G352 F353 I354 C355 M358 N359 V389 E393 E415 E419
Binding residue
(residue number reindexed from 1)		N95 F105 V118 D121 S122 V125 F126 I130 F157 L161 Y341 G346 F347 I348 C349 M352 N353 V383 E387 E409 E413
Enzymatic activity
Enzyme Commision number 3.1.4.35: 3',5'-cyclic-GMP phosphodiesterase.
Gene Ontology
Molecular Function
GO:0004114 3',5'-cyclic-nucleotide phosphodiesterase activity
GO:0004115 3',5'-cyclic-AMP phosphodiesterase activity
GO:0004117 calmodulin-activated dual specificity 3',5'-cyclic-GMP, 3',5'-cyclic-AMP phosphodiesterase activity
GO:0008081 phosphoric diester hydrolase activity
GO:0016787 hydrolase activity
GO:0046872 metal ion binding
GO:0047555 3',5'-cyclic-GMP phosphodiesterase activity
GO:0048101 calmodulin-activated 3',5'-cyclic-GMP phosphodiesterase activity
Biological Process
GO:0007165 signal transduction
GO:0007601 visual perception
GO:0019933 cAMP-mediated signaling
GO:0043153 entrainment of circadian clock by photoperiod
GO:0060041 retina development in camera-type eye
Cellular Component
GO:0001750 photoreceptor outer segment
GO:0016020 membrane
GO:0042622 photoreceptor outer segment membrane
GO:0042995 cell projection
GO:0097381 photoreceptor disc membrane

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8ugb, PDBe:8ugb, PDBj:8ugb
PDBsum8ugb
PubMed38159849
UniProtP23439|PDE6B_BOVIN Rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit beta (Gene Name=PDE6B)

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