Structure of PDB 6mzb Chain B

Receptor sequence
>6mzbB (length=807) Species: 9913 (Bos taurus) [Search protein sequence]
FADQYFGRKLSPEDVANACEDGCPEGCTSFRELCQVEESAALFELVQDMQ
ENVNMERVVFKILRRLCSILHADRCSLFMYRQRNGVAELATRLFSVQPDS
VLEDCLVPPDSEIVFPLDIGVVGHVAQTKKMVNVQDVMECPHFSSFADEL
TDYVTRNILATPIMNGKDVVAVIMAVNKLDGPCFTSEDEDVFLKYLNFGT
LNLKIYHLSYLHNCETRRGQVLLWSANKVFEELTDIERQFHKAFYTVRAY
LNCDRYSVGLLDMTKEKEFFDVWPVLMGEAQAYSGPRTPDGREILFYKVI
DYILHGKEDIKVIPSPPADHWALASGLPTYVAESGFICNIMNAPADEMFN
FQEGPLDDSGWIVKNVLSMPIVNKKEEIVGVATFYNRKDGKPFDEQDEVL
MESLTQFLGWSVLNTDTYDKMNKLENRKDIAQDMVLYHVRCDREEIQLIL
PTRERLGKEPADCEEDELGKILKEVLPGPAKFDIYEFHFSDLECTELELV
KCGIQMYYELGVVRKFQIPQEVLVRFLFSVSKGYRRITYHNWRHGFNVAQ
TMFTLLMTGKLKSYYTDLEAFAMVTAGLCHDIDHRGTNNLYQMKSQNPLA
KLHGSSILERHHLEFGKFLLSEETLNIYQNLNRRQHEHVIHLMDIAIIAT
DLALYFKKRTMFQKIVDESKNYEDRKSWVEYLSLETTRKEIVMAMMMTAC
DLSAITKPWEVQSKVALLVAAEFWEQGDLERTVLDQQPIPMMDRNKAAEL
PKLQVGFIDFVCTFVYKEFSRFHEEILPMFDRLQNNRKEWKALADEYEAK
VKALEED
3D structure
PDB6mzb Cryo-EM structure of phosphodiesterase 6 reveals insights into the allosteric regulation of type I phosphodiesterases.
ChainB
Resolution3.4 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.1.4.35: 3',5'-cyclic-GMP phosphodiesterase.
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 B H561 H597 H544 H580
BS02 35G B R91 S93 F95 F111 G137 V138 V139 F160 S161 M191 R74 S76 F78 F94 G120 V121 V122 F143 S144 M174
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

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6mzb, PDBe:6mzb, PDBj:6mzb
PDBsum6mzb
PubMed30820458
UniProtP23439|PDE6B_BOVIN Rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit beta (Gene Name=PDE6B)

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